Bioportal mappings to Units of measurement (UO) ver1.21 Tomasz Adamusiak Bioportal mappings to Malaria Ontology (MALIDO) ver0.2b Bioportal mappings to BRENDA tissue / enzyme source (BTO) ver1.3 Bioportal mappings to Microarray experimental conditions (MO) ver1.3.1.1 Bioportal mappings to SNOMED Clinical Terms (SNOMEDCT) ver2009_01_31 Bioportal mappings to Drosophila gross anatomy (FBbt) ver1.30 Bioportal mappings to Human disease (DOID) ver1.88 Date: 11th February 2010: Helen Parkinson Bioportal mappings to Cell type (CL) ver1.40 Mappings:The Arabidopsis Information Resource (TAIR) Bioportal mappings to Phenotypic quality (PATO) ver1.188 Bioportal mappings to International Classification of Diseases (ICD-9) ver9 Bioportal mappings to Mammalian phenotype (MP) ver1.309 Bioportal mappings to Zebrafish anatomy and development (ZFA) ver1.23 Bioportal mappings to Foundational Model of Anatomy (FMA) ver3.0 Bioportal mappings to Chemical entities of biological interest (CHEBI) ver1.59 Bioportal mappings to Minimal anatomical terminology (MAT) ver1.1 Mappings to Plant structure (PO) Mappings: CRISP Thesaurus Version 2.5.2.0 2.1.1 Bioportal mappings to NIFSTD (nif) ver1.4 Bioportal mappings to Mosquito gross anatomy (TGMA) ver1.10 Bioportal mappings to Medical Subject Headings (MSH) ver2009_2009_02_13 Bioportal mappings to NCI Thesaurus (NCIt) ver09.07 James Malone Mappings: The Jackson Lab Ele Holloway Bioportal mappings to Ontology for Biomedical Investigations (OBI) ver2009-11-06 Philly (aka version 1.0) Release Candidate James Malone stage I endometrioid carcinoma cervix epithelium NCIt:C49218 MA:0001724 James Malone BioportalImporter v.1.2 D341Med James Malone Ele Holloway James Malone CS57537 CS57537 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?type=stock&id=1000311958 http://www.arabidopsis.org/servlets/TairObject?type=stock&id=1000311958 GM11994 James Malone MO_562 cell line true A cell line is a cell factor which describes a population of cells cultured in vitro that are descended through one or more generations (and possible sub-cultures) from a single primary culture which was originally derived from part of an organism. The cells of such a population share common characteristics. Jie Zheng Tomasz Adamusiak James Malone Atwood et al (2000) OED of Biochemistry and Molecular Biology, Oxford University Press. FBbt:00001779 James Malone dorsal metathoracic disc oxamic acid BioportalImporter v.1.2 CHEBI:18058 A dicarboxylic acid amide that has formula C2H3NO3.[accessedResource: CHEBI:18058][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001588 pancreatic endoderm Tomasz Adamusiak Jie Zheng true James Malone A protocol factor is an experimental factor which describes factors that describe the protocol design of an experiment. synonymous with protocol obsolete_protocol factor James Malone DOID:12930 Same as dilated cardiomyopathy EFO_0000407 Cardiomyopathy, Dilated[accessedResource: DOID:12930][accessDate: 2009-11-30] true MSH:D002311 Tomasz Adamusiak SNOMEDCT:399020009 SNOMEDCT:195021004 obsolete_congestive cardiomyopathy BioportalImporter v.1.2 A form of CARDIAC MUSCLE disease that is characterized by ventricular dilation, VENTRICULAR DYSFUNCTION, and HEART FAILURE. Risk factors include SMOKING; ALCOHOL DRINKING; HYPERTENSION; INFECTION; PREGNANCY; and mutations in the LMNA gene encoding LAMIN TYPE A, a NUCLEAR LAMINA protein.[accessedResource: MSH:D002311][accessDate: 2009-11-30] primary dilated cardiomyopathy (disorder)[accessedResource: DOID:12930][accessDate: 2009-11-30] Congestive cardiomyopathy (disorder)[accessedResource: DOID:12930][accessDate: 2009-11-30] Congestive cardiomyopathy[accessedResource: DOID:12930][accessDate: 2009-11-30] 1.7 2,3,7,8-tetrachlorooxanthrene[accessedResource: CHEBI:28119][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001470 BioportalImporter v.1.2 2,3,7,8-tetrachlorodibenzodioxine A polychlorinated dibenzodioxine that has formula C12H4Cl4O2.[accessedResource: CHEBI:28119][accessDate: 2009-11-30] CHEBI:28119 CL:0000540 neuron[accessedResource: CL:0000540][accessDate: 2009-11-30] obsolete_nerve cell The basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system.[accessedResource: CL:0000540][accessDate: 2009-11-30] BioportalImporter v.1.2 1.8 Detected as synonym for neuron, deprecated in favour of it. true James Malone SAEL:71 EMAPA:16469 ZFA:0000396 XAO:0000177 nervous system The nervous system is essentially a biological information highway, and is responsible for controlling all the biological processes and movement in the body, and can also receive information and interpret it via electrical signals which are used in this nervous system. It consists of the Central Nervous System (CNS), essentially the processing area and the Peripheral Nervous System which detects and sends electrical impulses that are used in the nervous system.[accessedResource: BTO:0001484][accessDate: 2009-11-30] MAT:0000026 NIFSTD:birnlex_844 FMAID:7157 EHDAA:826 AAO:0000324 BioportalImporter v.1.2 Tomasz Adamusiak James Malone WBbt:0005735 TAO:0000396 EV:0100162 All the nerve centers and nerve fibers in the central, visceral and peripheral nervous systems.[accessedResource: FBbt:00005093][accessDate: 2009-11-30] FBbt:00005093 BTO:0001484 MA:0000016 James Malone Archaea http://www.ebi.ac.uk/efo/EFO_0001447 EHDAA:420 1: A hollow muscular organ of vertebrate animals that by its rhythmic contraction acts as a force pump maintaining the circulation of the blood. n2: A structure in an invertebrate animal functionally analogous to the vertebrate heart.[accessedResource: BTO:0000562][accessDate: 2009-11-30] FBbt:00003154 TAO:0000114 EV:0100018 heart XAO:0000064 ZFA:0000114 FMAID:7088 SAEL:47 James Malone BioportalImporter v.1.2 TADS:0000147 EMAPA:16105 BTO:0000562 Organ with cavitated organ parts, which is continuous with the systemic and pulmonary arterial and venous trees. Examples: There is only one heart.[accessedResource: FMAID:7088][accessDate: 2009-11-30] MFO:0080860 MAT:0000036 CHEBI:50885 A mineralocorticoid that has formula C21H29FO5.[accessedResource: CHEBI:50885][accessDate: 2009-11-30] 9-fluoro-11beta,17,21-trihydroxypregn-4-ene-3,20-dione[accessedResource: CHEBI:50885][accessDate: 2009-11-30] fludrocortisone http://www.ebi.ac.uk/efo/EFO_0001536 BioportalImporter v.1.2 corm James Malone BioportalImporter v.1.2 MAT:0000368 BTO:0000285 A rounded thick modified underground stem base bearing membranous or scaly leaves and buds and acting as a vegetative reproductive structure.[accessedResource: BTO:0000285][accessDate: 2009-11-30] obsolete_sample factor true synonym with material entity Secondary olfactory cortex[accessedResource: FMA:72356][accessDate: 2009-11-30] James Malone entorhinal cortex FMA:72356 Entorhinal area[accessedResource: FMA:72356][accessDate: 2009-11-30] BioportalImporter v.1.2 Secondary olfactory cortical area (Carpenter)[accessedResource: FMA:72356][accessDate: 2009-11-30] Area 28 of Brodmann (Crosby)[accessedResource: FMA:72356][accessDate: 2009-11-30] James Malone Ele Holloway SM1 James Malone Dorsal skin is a skin found at the dorsal area of an animal. dorsal skin BCBL-1 James Malone Ele Holloway BM1604 James Malone Ele Holloway BioportalImporter v.1.2 http://www.ebi.ac.uk/efo/EFO_0001491 azathioprine A thiopurine that has formula C9H7N7O2S.[accessedResource: CHEBI:2948][accessDate: 2009-11-30] CHEBI:2948 6-[(1-methyl-4-nitro-1H-imidazol-5-yl)sulfanyl]-7H-purine[accessedResource: CHEBI:2948][accessDate: 2009-11-30] James Malone MAT:0000514 plant reproductive system structure James Malone A N-acylglucosamine that has formula C8H15N3O7.[accessedResource: CHEBI:9288][accessDate: 2009-11-30] BioportalImporter v.1.2 2-deoxy-2-{[methyl(nitroso)carbamoyl]amino}-alpha-D-glucopyranose[accessedResource: CHEBI:9288][accessDate: 2009-11-30] streptozocin[accessedResource: CHEBI:9288][accessDate: 2009-11-30] streptozotocin http://www.ebi.ac.uk/efo/EFO_0001615 James Malone CHEBI:9288 Tomasz Adamusiak Jie Zheng James Malone The process of bringing about genetic alteration of any cell or organism by a variety of means including recombinant DNA technology, viruses, chemical mutagens and X-rays. transfection MO_849 CS57811 CS57811 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158835&type=germplasm James Malone http://www.arabidopsis.org/servlets/TairObject?id=1005158835&type=germplasm James Malone Ele Holloway BioportalImporter v.1.2 anaplastic astrocytoma grade III Astrocytic tumor[accessedResource: DOID:3078][accessDate: 2009-11-30] Astrocytoma, anaplastic (morphologic abnormality)[accessedResource: DOID:3078][accessDate: 2009-11-30] DOID:3078 BTO:0000088 Organ system which consists of the heart, the systemic and pulmonary arterial and venous system, the lymphatic and the portal venous system.[accessedResource: FMAID:7161][accessDate: 2009-11-30] EV:0100017 SAEL:16 FBbt:00005057 cardiovascular system FMAID:7161 MAT:0000016 ZFA:0000010 BioportalImporter v.1.2 MA:0000010 XAO:0000100 James Malone TAO:0000010 CV system[accessedResource: FMAID:7161][accessDate: 2009-11-30] MFO:000290 EHDAA:394 TADS:0000146 The system of heart and blood vessels.[accessedResource: BTO:0000088][accessDate: 2009-11-30] EMAPA:16104 CHEBI:5931 James Malone http://www.ebi.ac.uk/efo/EFO_0001673 insulin James Malone U87 OE33 James Malone Ele Holloway GeneRIF:12918063 GeneRIF:11836605 GeneRIF:12374671 GeneRIF:14634100 GeneRIF:12923324 GeneRIF:12687616 GeneRIF:15815931 GeneRIF:15709189 GeneRIF:12883699 GeneRIF:16109772 GeneRIF:12114441 GeneRIF:14996858 GeneRIF:11957142 GeneRIF:15819721 GeneRIF:12503077 GeneRIF:15688187 GeneRIF:11891209 GeneRIF:14633739 GeneRIF:15660698 James Malone GeneRIF:12414512 GeneRIF:12579497 DOID:3910 GeneRIF:12163326 GeneRIF:11801602 Adenocarcinoma of Lung[accessedResource: NCIt:C3512][accessDate: 2009-11-30] GeneRIF:15197584 GeneRIF:12698189 GeneRIF:12164330 GeneRIF:12420220 GeneRIF:16232198 GeneRIF:12942568 Adenocarcinoma of lung (disorder)[accessedResource: DOID:3910][accessDate: 2009-11-30] Adenocarcinoma of the Lung[accessedResource: NCIt:C3512][accessDate: 2009-11-30] GeneRIF:14735190 GeneRIF:12824892 GeneRIF:15944787 GeneRIF:16184720 GeneRIF:15809747 GeneRIF:16116610 NCIt:C3512 GeneRIF:8564085 GeneRIF:15976377 GeneRIF:14607333 GeneRIF:15943786 GeneRIF:15216431 GeneRIF:12234996 GeneRIF:14511407 GeneRIF:12152160 SNOMEDCT:254626006 lung adenocarcinoma GeneRIF:16061866 GeneRIF:12644570 BioportalImporter v.1.2 A carcinoma characterized by the presence of malignant glandular epithelial cells. There is a male predilection with a male to female ratio of 2:1. Usually lung adenocarcinoma is asymptomatic and is identified through screening studies or as an incidental radiologic finding. If clinical symptoms are present they include shortness of breath, cough, hemoptysis, chest pain, and fever. Tobacco smoke is a known risk factor.[accessedResource: NCIt:C3512][accessDate: 2009-11-30] GeneRIF:14744769 GeneRIF:16108829 GeneRIF:15476444 GeneRIF:16115812 GeneRIF:12706247 GeneRIF:15644269 GeneRIF:12008025 GeneRIF:12614934 GeneRIF:16054230 GeneRIF:12657678 NIFSTD:birnlex_12500 GeneRIF:12691731 GeneRIF:14981075 GeneRIF:12890790 Huntington disease[accessedResource: DOID:12858][accessDate: 2009-11-30] GeneRIF:14522959 GeneRIF:12915485 GeneRIF:15359012 GeneRIF:15383276 BioportalImporter v.1.2 GeneRIF:11817536 GeneRIF:15922606 Huntington's disease Pathway[accessedResource: DOID:12858][accessDate: 2009-11-30] GeneRIF:14985389 GeneRIF:12952868 GeneRIF:15934928 GeneRIF:15878807 GeneRIF:15715085 GeneRIF:15057517 GeneRIF:11432963 Huntington's disease Huntington's chorea[accessedResource: DOID:12858][accessDate: 2009-11-30] Tomasz Adamusiak GeneRIF:11914418 A familial disorder inherited as an autosomal dominant trait and characterized by the onset of progressive CHOREA and DEMENTIA in the fourth or fifth decade of life. Common initial manifestations include paranoia; poor impulse control; DEPRESSION; HALLUCINATIONS; and DELUSIONS. Eventually intellectual impairment; loss of fine motor control; ATHETOSIS; and diffuse chorea involving axial and limb musculature develops, leading to a vegetative state within 10-15 years of disease onset. The juvenile variant has a more fulminant course including SEIZURES; ATAXIA; dementia; and chorea. (From Adams et al., Principles of Neurology, 6th ed, pp1060-4)[accessedResource: MSH:D006816][accessDate: 2009-11-30] GeneRIF:12736330 GeneRIF:12078510 GeneRIF:12969257 GeneRIF:11813242 MSH:D006816 GeneRIF:15817265 HD[accessedResource: DOID:12858][accessDate: 2009-11-30] SNOMEDCT:58756001 GeneRIF:16184606 GeneRIF:15033177 GeneRIF:11593450 GeneRIF:15843398 GeneRIF:15880743 GeneRIF:12682342 GeneRIF:12960759 GeneRIF:15167689 ICD9:333.4 GeneRIF:15845076 GeneRIF:15496672 GeneRIF:14511117 GeneRIF:14725621 DOID:12858 GeneRIF:14751289 GeneRIF:15742215 GeneRIF:12604778 GeneRIF:15009635 GeneRIF:12531510 GeneRIF:12950446 GeneRIF:12528814 GeneRIF:15029481 James Malone Huntington's chorea (disorder)[accessedResource: DOID:12858][accessDate: 2009-11-30] GeneRIF:12781994 GeneRIF:14978262 GeneRIF:15261377 GeneRIF:15749339 GeneRIF:15337316 SNOMEDCT:404053004 alveolar rhabdomyosarcoma James Malone GeneRIF:15140004 GeneRIF:11846302 Alveolar rhabdomyosarcoma (disorder)[accessedResource: DOID:4051][accessDate: 2009-11-30] GeneRIF:16157701 MSH:D018232 BioportalImporter v.1.2 A form of RHABDOMYOSARCOMA occurring mainly in adolescents and young adults, affecting muscles of the extremities, trunk, orbital region, etc. It is extremely malignant, metastasizing widely at an early stage. Few cures have been achieved and the prognosis is poor. "Alveolar" refers to its microscopic appearance simulating the cells of the respiratory alveolus. (Holland et al., Cancer Medicine, 3d ed, p2188)[accessedResource: MSH:D018232][accessDate: 2009-11-30] SNOMEDCT:63449009 A rapidly growing malignant mesenchymal neoplasm. It is characterized by the presence of round cells with myoblastic differentiation and a fibrovascular stroma resembling an alveolar growth pattern. The tumor usually presents in the extremities.[accessedResource: NCIt:C3749][accessDate: 2009-11-30] DOID:4051 Alveolar rhabdomyosarcoma (morphologic abnormality)[accessedResource: DOID:4051][accessDate: 2009-11-30] NCIt:C3749 GeneRIF:12039929 James Malone BioportalImporter v.1.2 spindle cell tumor NCIt:C27263 DOID:2414 Spindle Cell Neoplasm[accessedResource: NCIt:C27263][accessDate: 2009-11-30] CL:0000839 A progenitor cell of any myeloid lineage, potentially multipotent.[accessedResource: CL:0000839][accessDate: 2009-11-30] myeloid progenitor cell Tomasz Adamusiak BioportalImporter v.1.2 FBbt:00004511 TGMA:0000007 BTO:0000074 Paired, segmented, jointed, sensory appendage attached to the anterior of the head capsule, between the eyes.[accessedResource: FBbt:00004511][accessDate: 2009-11-30] BioportalImporter v.1.2 antenna MAT:0000086 One of the paired anterior appendicular organs of the insect head.[accessedResource: TGMA:0000007][accessDate: 2009-11-30] James Malone One of a pair of slender movable segmented sensory organs on the head of insects, myriapods, and crustaceans.[accessedResource: BTO:0000074][accessDate: 2009-11-30] ITM James Malone Ele Holloway mature B-lymphocyte[accessedResource: CL:0000785][accessDate: 2009-11-30] 721 B lymphoblasts A B cell that is mature, having left the bone marrow. Initially, these cells are IgM-positive and IgD-positive, and they can be activated by antigen.[accessedResource: CL:0000785][accessDate: 2009-11-30] CL:0000785 James Malone BioportalImporter v.1.2 mature B cell CHEBI:50159 http://www.ebi.ac.uk/efo/EFO_0001499 canrenoate BioportalImporter v.1.2 A steroid acid anion that has formula C22H29O4.[accessedResource: CHEBI:50159][accessDate: 2009-11-30] 17beta-hydroxy-3-oxo-21a-homopregna-4,6-dien-21a-oate[accessedResource: CHEBI:50159][accessDate: 2009-11-30] James Malone Ele Holloway DOID:3587 pancreatic ductal adenocarcinoma BioportalImporter v.1.2 CHEBI:26710 sodium chloride http://www.ebi.ac.uk/efo/EFO_0001611 An inorganic sodium salt that has formula ClNa.[accessedResource: CHEBI:26710][accessDate: 2009-11-30] BioportalImporter v.1.2 GeneRIF:15184910 James Malone GeneRIF:12904596 GeneRIF:12865925 SNOMEDCT:404051002 Embryonal rhabdomyosarcoma (morphologic abnormality)[accessedResource: DOID:3246][accessDate: 2009-11-30] embryonal rhabdomyosarcoma MSH:D018233 GeneRIF:15024701 NCIt:C8971 GeneRIF:15475955 A poorly circumscribed morphologic variant of rhabdomyosarcoma. It is characterized by the presence of primitive skeletal muscle differentiation in any stage of myogenesis. There are three histologic types, spindle cell, botryoid and anaplastic.[accessedResource: NCIt:C8971][accessDate: 2009-11-30] DOID:3246 SNOMEDCT:14269005 Embryonal rhabdomyosarcoma (disorder)[accessedResource: DOID:3246][accessDate: 2009-11-30] GeneRIF:11846302 A form of RHABDOMYOSARCOMA arising primarily in the head and neck, especially the orbit, of children below the age of 10. The cells are smaller than those of other rhabdomyosarcomas and are of two basic cell types: spindle cells and round cells. This cancer is highly sensitive to chemotherapy and has a high cure rate with multi-modality therapy. (From Holland et al., Cancer Medicine, 3d ed, p2188)[accessedResource: MSH:D018233][accessDate: 2009-11-30] pertussis pertussis[accessedResource: DOID:1116][accessDate: 2009-11-30] Pertussis (disorder)[accessedResource: DOID:1116][accessDate: 2009-11-30] GeneRIF:12946329 DOID:1116 GeneRIF:12464013 ICD9:033.0 Whooping cough due to B. pertussis[accessedResource: DOID:1116][accessDate: 2009-11-30] James Malone MSH:D014917 Whooping cough due to bordetella pertussis [B. pertussis][accessedResource: DOID:1116][accessDate: 2009-11-30] GeneRIF:15341649 SNOMEDCT:27836007 GeneRIF:16239529 A respiratory infection caused by BORDETELLA PERTUSSIS and characterized by paroxysmal coughing ending in a prolonged crowing intake of breath.[accessedResource: MSH:D014917][accessDate: 2009-11-30] GeneRIF:12220988 GeneRIF:15716435 BioportalImporter v.1.2 GeneRIF:15845471 whooping cough Malignant Peripheral Nerve Sheath Tumor[accessedResource: NCIt:C3798][accessDate: 2009-11-30] Malignant Peripheral Nerve Sheath Neoplasm[accessedResource: NCIt:C3798][accessDate: 2009-11-30] Malignant Neurilemoma[accessedResource: NCIt:C3798][accessDate: 2009-11-30] Malignant peripheral nerve sheath tumor [dup] (morphologic abnormality)[accessedResource: DOID:5940][accessDate: 2009-11-30] GeneRIF:14991838 SNOMEDCT:404037002 An uncommon, highly aggressive malignant tumor, arising from the peripheral nerves and affecting mostly adults in their third to sixth decades of life. It usually occurs in medium-sized and large nerves of the buttock, thigh, upper arm, or the paraspinal region. It may be associated with neurofibromatosis 1 (NF1). [Source: NCI Thesaurus C3798] MSH:D018317 true obsolete_malignant peripheral nerve sheath tumor class GeneRIF:12152785 SNOMEDCT:19897006 GeneRIF:14519636 Malignant Schwannoma[accessedResource: NCIt:C3798][accessDate: 2009-11-30] BioportalImporter v.1.2 GeneRIF:12782393 GeneRIF:11642720 DOID:5940 Malignant peripheral nerve sheath tumor (morphologic abnormality)[accessedResource: DOID:5940][accessDate: 2009-11-30] Malignant Tumor of Peripheral Nerve Sheath[accessedResource: NCIt:C3798][accessDate: 2009-11-30] MPNST[accessedResource: NCIt:C3798][accessDate: 2009-11-30] Malignant Neoplasm of the Peripheral Nerve Sheath[accessedResource: NCIt:C3798][accessDate: 2009-11-30] Malignant Peripheral Nerve Sheath Tumour[accessedResource: NCIt:C3798][accessDate: 2009-11-30] Malignant Neurilemmoma[accessedResource: NCIt:C3798][accessDate: 2009-11-30] Malignant Tumor of the Peripheral Nerve Sheath[accessedResource: NCIt:C3798][accessDate: 2009-11-30] Malignant Neoplasm of Peripheral Nerve Sheath[accessedResource: NCIt:C3798][accessDate: 2009-11-30] Neoplasms which arise from nerve sheaths formed by SCHWANN CELLS in the PERIPHERAL NERVOUS SYSTEM or by OLIGODENDROCYTES in the CENTRAL NERVOUS SYSTEM. Malignant peripheral nerve sheath tumors, NEUROFIBROMA, and NEURILEMMOMA are relatively common tumors in this category.[accessedResource: MSH:D018317][accessDate: 2009-11-30] GeneRIF:12660952 Malignant peripheral nerve sheath tumor (disorder)[accessedResource: DOID:5940][accessDate: 2009-11-30] NCIt:C3798 GeneRIF:12917360 GeneRIF:12730955 arachidonic acid BioportalImporter v.1.2 CHEBI:15843 An icosa-5,8,11,14-tetraenoic acid that has formula C20H32O2.[accessedResource: CHEBI:15843][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001489 (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoic acid[accessedResource: CHEBI:15843][accessDate: 2009-11-30] true obsolete_clinical history age The time period elapsed since an identifiable point in the life cycle of an organism. If a developmental stage is specified, the identifiable point would be the beginning of that stage. Pulmonary Hypertension[accessedResource: NCIt:C3120][accessDate: 2009-11-30] James Malone obsolete_pulmonary arterial hypertension duplicate of pulmonary hypertension EFO_0001361 true Increased pressure within the pulmonary circulation due to lung or heart disorder. [Source: NCI Thesaurus C3120] 1.8 NCIt:C3120 BioportalImporter v.1.2 http://www.arabidopsis.org/servlets/TairObject?id=1005158851&type=germplasm CS57827 James Malone CS57827 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158851&type=germplasm ArrayExpress production team An assay in which the methylation state is determined and is compared between samples. methylation profiling James Malone peripheral T-cell or NK-cell neoplasm neoplasm of mature T-cells or NK-cells Tomasz Adamusiak James Malone COLO829 James Malone Ele Holloway NCIt:C14138 aggressive Tomasz Adamusiak Jie Zheng CL:0000236 B Cell[accessedResource: NCIt:C12474][accessDate: 2009-11-30] BioportalImporter v.1.2 Immunologically important lymphocyte that is not thymus-dependent, is either short-lived and naive or long-lived and of memory phenotype, and resembles the bursa-derived lymphocyte of birds in that it is responsible for the production of immunoglobulins.[accessedResource: NCIt:C12474][accessDate: 2009-11-30] Consolidated with B cell (EFO_0000101), use B cell class instead. Bursa-Dependent Lymphocytes[accessedResource: NCIt:C12474][accessDate: 2009-11-30] obsolete_B lymphocyte B-Lymphocyte[accessedResource: NCIt:C12474][accessDate: 2009-11-30] true B Cells[accessedResource: NCIt:C12474][accessDate: 2009-11-30] A lymphocyte of B lineage with the phenotype CD19-positive and surface immunoglobulin-positive.[accessedResource: CL:0000236][accessDate: 2009-11-30] Bursa-Equivalent Lymphocyte[accessedResource: NCIt:C12474][accessDate: 2009-11-30] B-Lymphocytes[accessedResource: NCIt:C12474][accessDate: 2009-11-30] NCIt:C12474 GM12044 James Malone GM19238 CS57691 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158715&type=germplasm CS57691 James Malone http://www.arabidopsis.org/servlets/TairObject?id=1005158715&type=germplasm James Malone Ele Holloway CCFSTTG1 superior colliculus MA:0001068 James Malone Ele Holloway http://www.arabidopsis.org/servlets/TairObject?id=1005158644&type=germplasm James Malone CS57620 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158644&type=germplasm CS57620 Kin-S49 James Malone James Malone Ele Holloway HCC1008 YPAC James Malone Ele Holloway MO_447 genetic modification design Tomasz Adamusiak ENBREL etanercept FMA:54510 Ele Holloway Oculomotor nuclear complex[accessedResource: FMA:54510][accessDate: 2009-11-30] James Malone Nucleus of third cranial nerve[accessedResource: FMA:54510][accessDate: 2009-11-30] Nucleus of oculomotor nerve[accessedResource: FMA:54510][accessDate: 2009-11-30] BioportalImporter v.1.2 EV:0100250 Third cranial nerve nucleus[accessedResource: FMA:54510][accessDate: 2009-11-30] oculomotor nucleus FMAID:7394 MAT:0000137 James Malone MA:0000441 SAEL:111 TADS:000315 1: The cartilaginous and membranous tube descending from the larynx and branching into the right and left main bronchi. It is kept patent by a series of about twenty transverse horseshoe-shaped cartilages. Called also windpipe. n2: One of a system of minute tubes ramifying throughout the body of a terrestrial arthropod and delivering air to the tissues. Called also tracheal tubule.[accessedResource: BTO:0001388][accessDate: 2009-11-30] trachea XAO:0000118 Windpipe[accessedResource: FMAID:7394][accessDate: 2009-11-30] EHDAA:3078 EMAPA:16853 FBbt:00005043 EV:0100040 BTO:0001388 BioportalImporter v.1.2 second UO:0000010 BioportalImporter v.1.2 A time unit which is equal to the duration of 9 192 631 770 periods of the radiation corresponding to the transition between the two hyperfine levels of the ground state of the caesium 133 atom.[accessedResource: UO:0000010][accessDate: 2009-11-30] James Malone s[accessedResource: UO:0000010][accessDate: 2009-11-30] A second is a time unit which is equal to the duration of 9 192 631 770 periods of the radiation corresponding to the transition between the two hyperfine levels of the ground state of the caesium 133 atom. http://www.ebi.ac.uk/efo/EFO_0001687 vertebra James Malone BioportalImporter v.1.2 MA:0000309 FMA:9914 Irregular bone that articulates with other vertebrae, or with one other vertebra and the skull or the sacrum[accessedResource: FMA:9914][accessDate: 2009-11-30] This lobe is located at the back of the head and is involved in vision and reading.[accessedResource: BTO:0000293][accessDate: 2009-11-30] BioportalImporter v.1.2 occipital lobe Occipital region[accessedResource: FMAID:67325][accessDate: 2009-11-30] Occipital cortex[accessedResource: FMAID:67325][accessDate: 2009-11-30] EV:0100170 BTO:0000293 Occipital lobe is the one of five lobes of the cerebral hemisphere which occupies the posterior-most portion of the hemisphere. Anteriorly, it shares an arbitrary border with the parietal lobe and temporal lobe. Medially, it is bounded by the longitudinal cerebral fissure.[accessedResource: FMAID:67325][accessDate: 2009-11-30] James Malone MAT:0000507 FMAID:67325 http://www.arabidopsis.org/servlets/TairObject?id=1005158871&type=germplasm CS57847 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158871&type=germplasm CS57847 James Malone BTO:0001235 BioportalImporter v.1.2 NCIt:C13047 James Malone seminiferous tubules Seminiferous Tubule[accessedResource: NCIt:C13047][accessDate: 2009-11-30] One of two or three twisted, curved tubules in each lobule of the testis in which spermatozoa develop.[accessedResource: BTO:0001235][accessDate: 2009-11-30] FBbt:00001433 embryonic ganglion mother cell Any ganglion mother cell (FBbt:00005149) that is part of some embryo (FBbt:00000052).[accessedResource: FBbt:00001433][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 operator variation design Tomasz Adamusiak MO_519 cardiogenic mesoderm[accessedResource: FBbt:00005541][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 cardiac mesoderm[accessedResource: FBbt:00005541][accessDate: 2009-11-30] CardMes[accessedResource: FBbt:00005541][accessDate: 2009-11-30] cardiac mesoderm primordium FBbt:00005541 CardMesP2[accessedResource: FBbt:00005541][accessDate: 2009-11-30] shoot component A shoot component is a plant component which is specifically part of a plant shoot. leaf component A leaf component is a plant component which is part of a leaf. James Malone duplication: use EFO_0000945 MA:0000688 BioportalImporter v.1.0 limb skeleton obsolete_limb bone MAT:0000151 James Malone true 1.4 cancer cell line http://www.arabidopsis.org/servlets/TairObject?id=1005158874&type=germplasm James Malone CS57850 CS57850 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158874&type=germplasm acute Monoblastic Leukemia and acute Monocytic Leukemia[accessedResource: DOID:8864][accessDate: 2009-11-30] GeneRIF:12547160 acute monocytic leukemia, morphology (morphologic abnormality)[accessedResource: DOID:8864][accessDate: 2009-11-30] acute monocytic leukaemia[accessedResource: DOID:8864][accessDate: 2009-11-30] GeneRIF:15145445 acute monocytic leukemia, FAB M5 (disorder)[accessedResource: DOID:8864][accessDate: 2009-11-30] BioportalImporter v.1.2 acute monoblastic leukemia (disorder)[accessedResource: DOID:8864][accessDate: 2009-11-30] acute monoblastic leukemia An acute myeloid leukemia in which 80% or more of the leukemic cells are of monocytic lineage including monoblasts, promonocytes, and MONOCYTES.[accessedResource: MSH:D007948][accessDate: 2009-11-30] James Malone ICD9:206.0 acute monocytic leukemia[accessedResource: DOID:8864][accessDate: 2009-11-30] MSH:D007948 DOID:8864 http://www.ebi.ac.uk/efo/EFO_0001486 Tomasz Adamusiak BioportalImporter v.1.2 NIFSTD:nlx_chem_20090603 Antipsychotic drugs are agents that control agitated psychotic behaviour, alleviate acute psychotic states, reduce psychotic symptoms, and exert a quieting effect.[accessedResource: CHEBI:35476][accessDate: 2009-11-30] antipsychotic drug placenta MAT:0000279 BTO:0001078 EVM:2000256 EV:3000466 James Malone BioportalImporter v.1.2 EV:0100119 SAEL:84 The vascular organ in mammals except monotremes and marsupials that unites the fetus to the maternal uterus and mediates its metabolic exchanges through a more or less intimate association of uterine mucosal with chorionic and usually allantoic tissues; also: an analogous organ in another animal.[accessedResource: BTO:0001078][accessDate: 2009-11-30] MA:0000386 FMAID:63934 CS57581 CS57581 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158605&type=germplasm James Malone http://www.arabidopsis.org/servlets/TairObject?id=1005158605&type=germplasm https://www.cbil.upenn.edu/RADQuerier/php/displayStudy.php?study_id=2424 Tomasz Adamusiak Jie Zheng NOD.B10 C57Bl/10 derived nonobese diabetic (NOD) mouse strain. BTO:0000052 stomatal complex James Malone MAT:0000346 PO:0002000 The epidermal complex consisting of two guard cells and the pore between them.[accessedResource: BTO:0000052][accessDate: 2009-11-30] BioportalImporter v.1.2 CHEBI:37848 James Malone plant growth hormone http://www.ebi.ac.uk/efo/EFO_0001861 ventral Ventral is a geometric modifier describing parts pertaining to the front or anterior of any structure, for example ventral striatum. James Malone MAT:0000493 ventral striatum CS57580 http://www.arabidopsis.org/servlets/TairObject?id=1005158604&type=germplasm James Malone CS57580 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158604&type=germplasm Papio anubis http://www.ebi.ac.uk/efo/EFO_0002652 Olive Baboon James Malone James Malone Sporadic amyotrophic lateral sclerosis is a amyotrophic lateral sclerosis in which there is no known cause, such as no family history. sporadic amyotrophic lateral sclerosis Tomasz Adamusiak MO_555 compound treatment design James Malone http://www.arabidopsis.org/servlets/TairObject?id=1005158661&type=germplasm CS57637 CS57637 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158661&type=germplasm TAO:0000471 General anatomical term which refers to a chamber or cavity to which are connected one or more chambers or passageways. Examples: right atrium of heart, atrium of middle nasal meatus, atrium of tympanic cavity, atrium of alveolus.[accessedResource: FMAID:85574][accessDate: 2009-11-30] FBbt:00005615 MAT:0000496 James Malone BTO:0000903 MA:0000073 In the heart, the atrium is an upper chamber found on both sides of the heart. The left atrium receives red, oxygenated blood from the lungs by way of the pulmonary veins. The right atrium receives dark red blood from the other parts of the body.[accessedResource: BTO:0000903][accessDate: 2009-11-30] EMAPA:16688 atrium ZFA0000471 EHDAA:1265 FMAID:85574 The paired upper chambers of the heart. The left atrium receives oxygenated blood from the pulmonary vein and pumps blood into the left ventricle. The right atrium receives venous deoxygenated blood from the entire body via the superior and inferior vena cavae and pumps blood into the right ventricle. [Source: NCI Thesaurus C12728] EV:0100018 MFO:0080900 cardiac atrium BioportalImporter v.1.2 CL:0000542 obsolete_T lymphocyte T lymphoma cell James Malone 1.7 Duplicate: use EFO_0000208 A cell of the B cell, T cell, or natural killer cell lineage.[accessedResource: CL:0000542][accessDate: 2009-11-30] true BioportalImporter v.1.2 RGD:70508 NIFSTD:birnlex_266 NIFSTD:birnlex_214 Tomasz Adamusiak James Malone Sprague Dawley An androgen that has formula C19H30O2.[accessedResource: CHEBI:16330][accessDate: 2009-11-30] CHEBI:16330 dihydrotestoterone 17beta-hydroxy-5alpha-androstan-3-one http://www.ebi.ac.uk/efo/EFO_0002007 James Malone BioportalImporter v.1.2 MAT:0000351 James Malone gall tissue FMA:10635 James Malone external carotid artery obsolete_strain factor 1.8 James Malone consolodated all strains into organism hierarchy true Tomasz Adamusiak NIFSTD:sao196989303 PATO:0000918 NIFSTD:birnlex_2391 A volume is a size quality which describes the amount of 3-dimensional space an object occupies. A 3-D extent quality inhering in a bearer by virtue of the bearer's amount of 3-dimensional space it occupies.[accessedResource: PATO:0000918][accessDate: 2009-11-30] BioportalImporter v.1.2 volume James Malone James Malone Ele Holloway MCC:0000292 LbetaT2 alpha cell CL:0000171 Tomasz Adamusiak Jie Zheng BioportalImporter v.1.2 pancreatic alpha cell[accessedResource: CL:0000171][accessDate: 2009-11-30] pancreatic A cell[accessedResource: CL:0000171][accessDate: 2009-11-30] James Malone Ele Holloway NCIH1650 BioportalImporter v.1.2 James Malone EMAPA:17174 BTO:0000717 ZFA:0000054 EV:0100023 FMAID:9869 EHDAA:5376 MAT:0000454 pericardium 1: The conical sac of serous membrane that encloses the heart and the roots of the great blood vessels of vertebrates.n2: A cavity or space that contains the heart of an invertebrate and in arthropods is a part of the hemocoel.[accessedResource: BTO:0000717][accessDate: 2009-11-30] Organ cluster which has as its parts the fibrous pericardium and the pericardial sac.[accessedResource: FMAID:9869][accessDate: 2009-11-30] pericardial sac[accessedResource: MAT:0000454][accessDate: 2009-11-30] Tomasz Adamusiak Jie Zheng James Malone BDC2.5/NOD is a mouse strain as described in Jackson Laboratory http://jaxmice.jax.org/strain/004460.html A mouse strain developed by selection for diabetes (high fasting blood glucose) from F6 of the CTS strain JAX:004460 BDC2.5/NOD Bacteria http://www.ebi.ac.uk/efo/EFO_0001448 James Malone James Malone Ele Holloway SW837 B140H James Malone Ele Holloway GeneRIF:15478069 GeneRIF:12825894 GeneRIF:15680239 GeneRIF:15599404 BioportalImporter v.1.2 GeneRIF:15498158 ICD9:017.92 GeneRIF:14568951 ICD9:017.93 SNOMEDCT:186275005 GeneRIF:16177361 GeneRIF:16224188 GeneRIF:12496428 GeneRIF:12753505 GeneRIF:16002675 GeneRIF:12934195 TB[accessedResource: NCIt:C3423][accessDate: 2009-11-30] SNOMEDCT:371569005 SNOMEDCT:56717001 SNOMEDCT:187292005 GeneRIF:11907104 GeneRIF:12368450 GeneRIF:15649891 GeneRIF:15804490 GeneRIF:15879133 GeneRIF:12296850 GeneRIF:12942785 NCIt:C3423 GeneRIF:12751024 GeneRIF:12596048 GeneRIF:15695641 GeneRIF:14551880 GeneRIF:15863395 GeneRIF:16077122 GeneRIF:15686559 SNOMEDCT:186274009 GeneRIF:12117995 ICD9:010-018.99 ICD9:017.96 SNOMEDCT:186247008 GeneRIF:12218133 GeneRIF:16103355 GeneRIF:15385470 GeneRIF:12195379 GeneRIF:12234259 GeneRIF:12391840 GeneRIF:12391841 GeneRIF:15061663 GeneRIF:15187146 GeneRIF:14979495 GeneRIF:15322009 GeneRIF:16267303 GeneRIF:12531774 GeneRIF:15879136 GeneRIF:15866927 ICD9:017.9 GeneRIF:15295696 GeneRIF:15050961 GeneRIF:16136464 GeneRIF:15039368 DOID:399 James Malone GeneRIF:15993364 GeneRIF:15860225 GeneRIF:12714269 GeneRIF:12516771 A chronic, recurrent infection caused by the bacterium Mycobacterium tuberculosis. Tuberculosis (TB) may affect almost any tissue or organ of the body with the lungs being the most common site of infection. The clinical stages of TB are primary or initial infection, latent or dormant infection, and recrudescent or adult-type TB. Ninety to 95% of primary TB infections may go unrecognized. Histopathologically, tissue lesions consist of granulomas which usually undergo central caseation necrosis. Local symptoms of TB vary according to the part affected; acute symptoms include hectic fever, sweats, and emaciation; serious complications include granulomatous erosion of pulmonary bronchi associated with hemoptysis. If untreated, progressive TB may be associated with a high degree of mortality. This infection is frequently observed in immunocompromised individuals with AIDS or a history of illicit IV drug use. --2004[accessedResource: NCIt:C3423][accessDate: 2009-11-30] GeneRIF:15138193 ICD9:017.90 GeneRIF:12244136 GeneRIF:15500449 ICD9:017.91 GeneRIF:12068984 GeneRIF:14500465 ICD9:017.94 ICD9:017.95 GeneRIF:15774900 SNOMEDCT:186271001 GeneRIF:12075004 GeneRIF:11791667 SNOMEDCT:373576009 SNOMEDCT:186282009 ICD9:017 GeneRIF:15882420 GeneRIF:12960337 GeneRIF:12646604 tuberculosis GeneRIF:11801672 GeneRIF:12077261 Tomasz Adamusiak true NIFSTD:birnlex_2117 obsolete_experiment BioportalImporter v.1.2 MAT:0000050 XAO:0000238 EMAPA:17896 SAEL:88 James Malone TGMA:0001028 MA:0000336 FBbt:00005756 BTO:0001158 TADS:0000166 WBbt:0005773 rectum EV:0100081 rectal sac[accessedResource: MAT:0000050][accessDate: 2009-11-30] The terminal part of the intestine from the sigmoid flexure to the anus.[accessedResource: BTO:0001158][accessDate: 2009-11-30] EHDAA:EHDAA\:5836 FMAID:14544 The bladder-like rectum is bounded by a layer of circular muscle fibres and by sparser longitudinal fibres.[accessedResource: TGMA:0001028][accessDate: 2009-11-30] James Malone MAT:0000043 gut[accessedResource: MAT:0000043][accessDate: 2009-11-30] intestines[accessedResource: MAT:0000043][accessDate: 2009-11-30] adult alimentary canal[accessedResource: MAT:0000043][accessDate: 2009-11-30] FMAID:7199 EHDAA:518 WBbt:0005772 intestine The fluid-feeding habit of adult mosquitoes is reflected in the structure and ultrastructure of the alimentary canal.[accessedResource: TGMA:0001819][accessDate: 2009-11-30] Bowel[accessedResource: FMAID:7199][accessDate: 2009-11-30] XAO:0000129 MFO:0003040 BTO:0000648 MA:0000328 BioportalImporter v.1.2 TGMA:0001819 TADS:0000165 EV:0100071 TAO:0001338 ZFA:0001338 AAO:0000246 The tubular part of the alimentary canal that extends from the stomach to the anus.[accessedResource: BTO:0000648][accessDate: 2009-11-30] SAEL:55 A phenol that has formula C6H6O.[accessedResource: CHEBI:15882][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0002417 James Malone Ele Holloway BioportalImporter v.1.2 CHEBI:15882 phenol 3rd instar larva FBbt:00005748 embryonic anal pad James Malone James Malone FBbt:00005556 apoptotic amnioserosa CHEBI:15365 acetylsalicylic acid[accessedResource: CHEBI:15365][accessDate: 2009-11-30] 2-(acetyloxy)benzoic acid[accessedResource: CHEBI:15365][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001462 acetylsalicylic acid http://www.ebi.ac.uk/efo/EFO_0001463 aspirin BioportalImporter v.1.2 OBI_0400116 MO_854 An instrument that is capable of repeatedly altering and maintaining specific temperatures for defined periods of time.[accessedResource: OBI_0400116][accessDate: 2009-11-30] thermal cycler James Malone BioportalImporter v.1.2 James Malone ZEA:0015175 MAT:0000004 BioportalImporter v.1.2 The individual or generation of a plant exhibiting alternation of generations that bears sex organs.[accessedResource: BTO:0000495][accessDate: 2009-11-30] PO:0009004 gametophyte BTO:0000495 CHEBI:27666 James Malone 2-amino-4,6-dimethyl-3-oxo-1-N,9-N-bis-[(18aS)-10c,14,17-trimethyl-5,8,12,15,18-pentaoxo-6c,13t-di(propan-2-yl)-18ar-hexadecahydro-1H-pyrrolo[2,1-i][1,4,7,10,13]oxatetraazacyclohexadecin-9c-yl]-3H-phenoxazine-1,9-dicarboxamide[accessedResource: CHEBI:27666][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001478 actinomycin D An actinomycin that has formula C62H86N12O16.[accessedResource: CHEBI:27666][accessDate: 2009-11-30] BioportalImporter v.1.2 James Malone Ele Holloway aggressive insulitis A drug that affects the rate or intensity of cardiac contraction, blood vessel diameter or blood volume.[accessedResource: CHEBI:35554][accessDate: 2009-11-30] CHEBI:35554 http://www.ebi.ac.uk/efo/EFO_0001846 cardiovascular drug James Malone BioportalImporter v.1.2 NCIt:C16731 NIFSTD:birnlex_429 NIFSTD:birnlex_699 BioportalImporter v.1.2 Tomasz Adamusiak NEWBORN (0-27 DAYS)[accessedResource: NCIt:C16731][accessDate: 2009-11-30] Newborn[accessedResource: NCIt:C16731][accessDate: 2009-11-30] Neonatal[accessedResource: NCIt:C16731][accessDate: 2009-11-30] neonate An infant during the first month after birth.[accessedResource: NCIt:C16731][accessDate: 2009-11-30] James Malone CS57732 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158756&type=germplasm James Malone http://www.arabidopsis.org/servlets/TairObject?id=1005158756&type=germplasm CS57732 COLO320HSR James Malone Ele Holloway NCIt:C53310 Tomasz Adamusiak James Malone BioportalImporter v.1.2 cross sectional study Tomasz Adamusiak Jie Zheng BioportalImporter v.1.2 NCIt:C32885 islet cell An Islet cell is a pancreatic cell that produces and secretes hormones such as insulin and glucagon.[accessedResource: NCIt:C32885][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 Any of a group of compounds, both naturally occurring and synthetic, that regulate aspects of plant growth (from Greek alphaupsilonxialphanuomega, "to grow").[accessedResource: CHEBI:22676][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001818 CHEBI:22676 auxin CS57586 James Malone http://www.arabidopsis.org/servlets/TairObject?id=1005158610&type=germplasm CS57586 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158610&type=germplasm Tomasz Adamusiak Jie Zheng intestinal endoderm antiprogestin Org 31710 NCIt:C12774 Pulmonary Trunk[accessedResource: NCIt:C12774][accessDate: 2009-11-30] pulmonary artery BioportalImporter v.1.2 An artery arising from the right ventricle of the heart that carries deoxygenated blood to the lungs. [Source: NCI Thesaurus C12774] BTO:0000778 James Malone An artery that conveys venous blood from the heart to the lungs.[accessedResource: BTO:0000778][accessDate: 2009-11-30] NIFSTD:birnlex_2015 A unit of measurement is a standardized quantity of a physical quality.[accessedResource: UO:0000000][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001446 Jie Zheng BioportalImporter v.1.2 James Malone MO_3 unit Tomasz Adamusiak A naphthalene that has formula C31H33N3O11.[accessedResource: CHEBI:50862][accessDate: 2009-11-30] James Malone (1S)-2-{[(1E)-1-[(3R,4R,5S)-3-(acetyloxy)-4-hydroxy-1-azabicyclo[3.1.0]hex-2-ylidene]-2-{[(1Z)-1-(hydroxymethylidene)-2-oxopropyl]amino}-2-oxoethyl]amino}-1-[(2S)-2-methyloxiran-2-yl]-2-oxoethyl 3-methoxy-5-methylnaphthalene-1-carboxylate[accessedResource: CHEBI:50862][accessDate: 2009-11-30] azinomycin B Ele Holloway CHEBI:50862 http://www.ebi.ac.uk/efo/EFO_0002005 azinomycin B[accessedResource: CHEBI:50862][accessDate: 2009-11-30] BioportalImporter v.1.2 http://www.ebi.ac.uk/efo/EFO_0002400 James Malone Ele Holloway REC1 SAEL:112 MAT:0000296 trunk BioportalImporter v.1.2 Tomasz Adamusiak James Malone NIFSTD:sao1078172392 FMAID:7181 1: The human or animal body apart from the head and appendages.n2: The thorax of an insect.[accessedResource: BTO:0001493][accessDate: 2009-11-30] MFO:0001720 XAO:0003025 BTO:0001493 TAO:0001115 Torso[accessedResource: FMAID:7181][accessDate: 2009-11-30] Subdivision of body proper, which consists of a maximal set of diverse subclasses of organ and organ part spatially associated with the ribcage, thoracic and lumbar vertebral column, sacrum and coccyx, it is partially surrounded by skin of trunk. Examples: There is only one trunk.[accessedResource: FMAID:7181][accessDate: 2009-11-30] DOID:4887 rotavirus infection Tomasz Adamusiak Ele Holloway MAT:0000482 intestinal primordium James Malone primordium A primordium is a tissue modifier describing an organ or tissue in its earliest recognizable stage of development. For example, intestinal primordium. James Malone CS57810 http://www.arabidopsis.org/servlets/TairObject?id=1005158834&type=germplasm CS57810 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158834&type=germplasm A fatty acid anion that has formula C4H7O2.[accessedResource: CHEBI:17968][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001496 BioportalImporter v.1.2 butyrate CHEBI:17968 butanoate[accessedResource: CHEBI:17968][accessDate: 2009-11-30] <WEB> http://en.wikipedia.org/wiki/ChIP-on-chip ChIP-Chip James Malone An experiment where chromatin immunoprecipitation (ChIP) is used in combination with microarray technology. Tomasz Adamusiak http://neurolex.org/wiki/Category:Hilus_of_dentate_gyrus MA:0000953 hippocampus CA4 The area of the plant from where the stamen is shed. stamen abscission zone James Malone Tomasz Adamusiak viral cardiomyopathy SNOMEDCT:30496006 spiracle TGMA:0000578 In its simplest form, the aperture or opening into a trachea (primary tracheal orifice); in most insects, sunken below the surface of the integument (secondary orifice) thus comprising a chamber, the spiracular atrium, and the external opening into this chamber, the spiracular opening.[accessedResource: TGMA:0000578][accessDate: 2009-11-30] spiracular gland[accessedResource: MAT:0000208][accessDate: 2009-11-30] BioportalImporter v.1.2 The mostly slit-like opening on the body surface of the insects through which air is taken into the respiratory system.[accessedResource: FBbt:00005054][accessDate: 2009-11-30] FBbt:00005054 TADS:0000524 MAT:0000208 James Malone BTO:0000497 MAT:0000343 James Malone TAO:0000190 XAO:0000209 EMAPA:16658 EHDAA:918 ganglion A group of nerve cell bodies located outside the central nervous system. The term is occasionally applied to certain nuclear groups within the brain or spinal cord, such as the basal ganglia.[accessedResource: BTO:0000497][accessDate: 2009-11-30] BioportalImporter v.1.2 KYSE30 James Malone Ele Holloway http://www.ebi.ac.uk/efo/EFO_0001860 James Malone cholinesterase inhibitor CHEBI:37733 James Malone CS57541 CS57541 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158565&type=germplasm http://www.arabidopsis.org/servlets/TairObject?id=1005158565&type=germplasm James Malone Ele Holloway A7 TAO:0000036 BioportalImporter v.1.0 MA:0000324 EHDAA:2189 EV:0100088 EMAPA:16840 MAT:0000024 ZFA:0000036 James Malone XAO:0000132 liver and biliary system Tomasz Adamusiak Jie Zheng https://www.cbil.upenn.edu/RADQuerier/php/displayStudy.php?study_id=2424 C57Bl/6 derived nonobese diabetic (NOD) mouse strain. NOD.B6 nervous system developmental tissue C57BL6 JAX:000664 1.8 James Malone obsolete_C57BL/6J Duplicate use EFO_0000605 true A/J is a mouse strain as described in Jackson Laboratory http://jaxmice.jax.org/strain/000664.html rosette stage Ductal Breast Carcinoma[accessedResource: DOID:3008][accessDate: 2009-11-30] NCIt:C4017 ductal carcinoma[accessedResource: NCIt:C4017][accessDate: 2009-11-30] BioportalImporter v.1.2 obsolete_ductal breast carcinoma DOID:3008 Duct Adenocarcinoma[accessedResource: NCIt:C4017][accessDate: 2009-11-30] Ductal Carcinoma of the Breast[accessedResource: NCIt:C4017][accessDate: 2009-11-30] Ductal Adenocarcinoma[accessedResource: DOID:3008][accessDate: 2009-11-30] A carcinoma arising from the ducts. While ductal carcinomas can arise at other sites, this term is universally used to refer to carcinomas of the breast. Ductal carcinomas account for about two thirds of all breast cancers. Two types of ductal carcinomas have been described: Ductal carcinoma in situ (DCIS) and invasive ductal carcinoma, not otherwise specified. The latter often spreads to the axillary lymph nodes and other anatomic sites. The two forms of ductal carcinoma often coexist.[accessedResource: NCIt:C4017][accessDate: 2009-11-30] Ductal Carcinoma of Breast[accessedResource: NCIt:C4017][accessDate: 2009-11-30] 1.5 James Malone Duplicate with invasive ductal carcinoma (EFO_0000186) true Duct Carcinoma[accessedResource: NCIt:C4017][accessDate: 2009-11-30] Infiltrating Medullary Carcinoma of Breast[accessedResource: NCIt:C9119][accessDate: 2009-11-30] Infiltrating Medullary Carcinoma of the Breast[accessedResource: NCIt:C9119][accessDate: 2009-11-30] Invasive Medullary Breast Carcinoma[accessedResource: NCIt:C9119][accessDate: 2009-11-30] BioportalImporter v.1.2 Invasive Medullary Carcinoma of Breast[accessedResource: NCIt:C9119][accessDate: 2009-11-30] An infiltrating breast carcinoma with a relatively favorable prognosis. It is an uncommon carcinoma, accounting for fewer than 1% of all infiltrating breast carcinomas. It is well circumscribed, with soft cut surface and often of considerable size. Microscopically, the predominant growth pattern is syncytial with broad anastomosing bands or sheets of malignant cells. The malignant cells are round with abundant cytoplasm and vesicular nuclei. The sheets of malignant cells are associated with a marked lymphoplasmacytic infiltrate. Glandular or tubular structures are absent.[accessedResource: NCIt:C9119][accessDate: 2009-11-30] Medullary Breast Carcinoma with Lymphoid Stroma[accessedResource: NCIt:C9119][accessDate: 2009-11-30] medullary breast carcinoma Invasive Medullary Carcinoma of the Breast[accessedResource: NCIt:C9119][accessDate: 2009-11-30] Medullary Carcinoma of the Breast[accessedResource: NCIt:C9119][accessDate: 2009-11-30] Medullary Carcinoma of Breast[accessedResource: NCIt:C9119][accessDate: 2009-11-30] James Malone DOID:5605 NCIt:C9119 transcription profiling by array An assay in which the transcriptome of a biological sample is analysed using array technology. HTL96012 BTO:0001861 BxPC-3 Ele Holloway BxPC3 James Malone CRISP Thesaurus 2006, Term Number 2000-0386, http://crisp.cit.nih.gov/Thesaurus/00000107.htm Date accessed: 1st Novemeber 2007 A type of carcinoma derived from glandular tissue or in which tumor cells form recognizable glandular structures. James Malone adenocarcinoma http://www.ebi.ac.uk/efo/EFO_0001869 CHEBI:38498 mitochondrial NADH:ubiquinone reductase inhibitor James Malone SNB19 James Malone Ele Holloway Gorilla gorilla James Malone http://www.ebi.ac.uk/efo/EFO_0002641 Western gorilla BioportalImporter v.1.2 CL:0000817 B-cell precursor James Malone pre-B cell pre-BI cell A precursor B cell is a B cell with the phenotype CD10-positive (P08473/NEP_HUMAN; PIRSF001194).[accessedResource: CL:0000817][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 NCIt:C753 placebo An inactive substance, treatment or procedure that is intended to provide baseline measurements for the experimental protocol of a clinical trial.[accessedResource: NCIt:C753][accessDate: 2009-11-30] sham therapy[accessedResource: NCIt:C753][accessDate: 2009-11-30] PLCB[accessedResource: NCIt:C753][accessDate: 2009-11-30] James Malone FBbt:00005662 embryonic central brain James Malone dimethyl sulfoxide CHEBI:28262 A sulfoxide that has formula C2H6OS.[accessedResource: CHEBI:28262][accessDate: 2009-11-30] (methanesulfinyl)methane[accessedResource: CHEBI:28262][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001523 BioportalImporter v.1.2 AU565 James Malone F13 James Malone Ele Holloway Tomasz Adamusiak Jie Zheng proximal portion of circumflex branch of left coronary artery FMAID:3897 true obsolete_biomaterial factor redundant use material entity GeneRIF:15775704 SNOMEDCT:75694006 GeneRIF:11462247 GeneRIF:15184081 GeneRIF:15215328 GeneRIF:16230078 BioportalImporter v.1.2 Inflammation of the pancreas.[accessedResource: NCIt:C3306][accessDate: 2009-11-30] GeneRIF:15316224 GeneRIF:16038043 GeneRIF:14762792 GeneRIF:12360463 James Malone GeneRIF:12120224 GeneRIF:11702203 GeneRIF:14688470 MSH:D010195 GeneRIF:14526128 GeneRIF:12401800 INFLAMMATION of the PANCREAS. Pancreatitis is classified as acute unless there are computed tomographic or endoscopic retrograde cholangiopancreatographic findings of CHRONIC PANCREATITIS (International Symposium on Acute Pancreatitis, Atlanta, 1992). The two most common forms of acute pancreatitis are ALCOHOLIC PANCREATITIS and gallstone pancreatitis.[accessedResource: MSH:D010195][accessDate: 2009-11-30] GeneRIF:15237442 GeneRIF:12825076 GeneRIF:15572849 GeneRIF:11825647 GeneRIF:15786540 DOID:4989 GeneRIF:15458925 GeneRIF:12011155 NCIt:C3306 GeneRIF:12765848 pancreatitis GeneRIF:12227654 GeneRIF:12360464 GeneRIF:11961487 James Malone A volume unit which is equal to one tenth of a liter or 10^[-1] L.[accessedResource: UO:0000209][accessDate: 2009-11-30] Tomasz Adamusiak dl[accessedResource: UO:0000209][accessDate: 2009-11-30] MO_624 http://www.ebi.ac.uk/efo/EFO_0001716 BioportalImporter v.1.2 Jie Zheng deciliter A deciliter is a volume unit which is equal to one tenth of a liter or 10^-1 L. James Malone RGD:1359002 Wistar-Kyoto NCIt:C12427 parotid gland Parotid[accessedResource: NCIt:C12427][accessDate: 2009-11-30] Tomasz Adamusiak Jie Zheng BioportalImporter v.1.2 The largest of the three paired salivary glands, located in front of the ear.[accessedResource: NCIt:C12427][accessDate: 2009-11-30] FBbt:00005665 James Malone embryonic central brain neuron FBbt:00005527 dorsal ectoderm primordium James Malone James Malone bronchial epithelial alveolar epithelial type I bronchoalveolar lavage cell bronchial epithelial cells alveolar epithelial type II true 1.9 obsolete_epithelial cell of lung CL:0000082 compound term epithelial cell + lung HSSultan James Malone Ele Holloway Tomasz Adamusiak Jie Zheng esophageal endoderm mass spectrometry assay http://www.ebi.ac.uk/efo/EFO_0002737 neuropeptide S CHEBI:53461 Tomasz Adamusiak Ele Holloway SKNFI James Malone Ele Holloway A computer is an instrument which manipulates (stores, retrieves, and processes) data according to a list of instructions.[accessedResource: OBI_0400107][accessDate: 2009-11-30] OBI_0400107 MO_510 computer James Malone BioportalImporter v.1.2 craniofacial tissue James Malone The larval cranium exclusive of the dorsal apotome.[accessedResource: TGMA:0000720][accessDate: 2009-11-30] MAT:0000017 MA:0000316 epicranial plate[accessedResource: MAT:0000017][accessDate: 2009-11-30] BioportalImporter v.1.2 FBbt:00003007 TGMA:0000720 ZFA:0001114 PATO:0000117 James Malone BioportalImporter v.1.2 size Size is a morphology quality which describes a material entity's physical magnitude. A morphology quality inhering in a bearer by virtue of the bearer's physical magnitude.[accessedResource: PATO:0000117][accessDate: 2009-11-30] GeneRIF:15556291 GeneRIF:12850481 ICD9:282.69 BioportalImporter v.1.2 GeneRIF:15834635 SNOMEDCT:127040003 GeneRIF:14579408 GeneRIF:15153712 DOID:10923 GeneRIF:11869935 GeneRIF:15297857 ICD9:282.6 GeneRIF:15388579 GeneRIF:15609334 GeneRIF:12677174 ICD9:282.68 GeneRIF:15556687 SNOMEDCT:191195005 SNOMEDCT:191199004 GeneRIF:15023184 GeneRIF:14967817 GeneRIF:12773623 GeneRIF:12714517 GeneRIF:15271798 GeneRIF:12549821 GeneRIF:12673836 GeneRIF:12928439 sickle cell disease Sickle Cell Anemia[accessedResource: NCIt:C34383][accessDate: 2009-11-30] GeneRIF:14683458 A blood disorder characterized by the appearance of sickle-shaped red blood cells and anemia.[accessedResource: NCIt:C34383][accessDate: 2009-11-30] GeneRIF:12601490 NCIt:C34383 GeneRIF:15586174 GeneRIF:15855323 ICD9:282.60 James Malone GeneRIF:15662557 GeneRIF:14755370 CL:0000784 IPC[accessedResource: CL:0000784][accessDate: 2009-11-30] lymphoid dendritic cell[accessedResource: CL:0000784][accessDate: 2009-11-30] A dendritic cell type of distinct morphology, localization, and surface marker expression from other dendritic cell types and associated with early stage immune responses, particularly the release of physiologically abundant amounts of type I interferons in response to infection.[accessedResource: CL:0000784][accessDate: 2009-11-30] plasmacytoid dendritic cell T-associated plasma cell[accessedResource: CL:0000784][accessDate: 2009-11-30] plasmacytoid T cell[accessedResource: CL:0000784][accessDate: 2009-11-30] BioportalImporter v.1.2 James Malone pDC[accessedResource: CL:0000784][accessDate: 2009-11-30] interferon-producing cell[accessedResource: CL:0000784][accessDate: 2009-11-30] plasmacytoid monocyte[accessedResource: CL:0000784][accessDate: 2009-11-30] DC2[accessedResource: CL:0000784][accessDate: 2009-11-30] in vitro design MO_347 Tomasz Adamusiak ICD9:510-519.99 James Malone SNOMEDCT:196057004 ICD9:519.1 ICD9:500-508.99 SNOMEDCT:196184000 SNOMEDCT:196243005 BioportalImporter v.1.2 Respiratory Disorder[accessedResource: NCIt:C26871][accessDate: 2009-11-30] DOID:1579 ICD9:517.8 SNOMEDCT:196244004 ICD9:519.3 NCIt:C26871 ICD9:508.1 ICD9:503 ICD9:460-519.99 ICD9:519.8 ICD9:508.9 SNOMEDCT:196185004 ICD9:519 SNOMEDCT:196241007 ICD9:517 SNOMEDCT:266373008 ICD9:508 SNOMEDCT:50043002 ICD9:519.9 ICD9:516.9 ICD9:516 ICD9:516.8 ICD9:508.8 respiratory system disease SNOMEDCT:196255004 CS57714 CS57714 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158738&type=germplasm http://www.arabidopsis.org/servlets/TairObject?id=1005158738&type=germplasm James Malone adenosine 3',5'-(hydrogen phosphate)[accessedResource: CHEBI:17489][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001471 A 3',5'-cyclic purine nucleotide that has formula C10H12N5O6P.[accessedResource: CHEBI:17489][accessDate: 2009-11-30] CHEBI:17489 BioportalImporter v.1.2 3',5'-cyclic AMP James Malone immunoprecipitate The antibody used to precipitate an antigen out of a solution during the process of immunoprecipitation. A temperature unit is a base unit which is a standard measure of the average kinetic energy of the particles in a sample of matter. BioportalImporter v.1.2 Tomasz Adamusiak MO_48 http://www.ebi.ac.uk/efo/EFO_0001682 A base unit which is a standard measure of the average kinetic energy of the particles in a sample of matter.[accessedResource: UO:0000005][accessDate: 2009-11-30] James Malone temperature unit Jie Zheng raphe magnus James Malone Ele Holloway Tomasz Adamusiak Jie Zheng BioportalImporter v.1.2 IDOMAL:0000296 The distinct stages of the life cycle of a protozoon of the genus Plasmodium.[accessedResource: IDOMAL:0000296][accessDate: 2009-11-30] plasmodium parasite stage A carcinoma of any tissue within the head and neck region. [Source: NCI Thesaurus C35850] James Malone NCIt:C35850 head and neck squamous cell carcinoma NCIt:C34447 SCCHN[accessedResource: NCIt:C34447][accessDate: 2009-11-30] BioportalImporter v.1.2 Squamous cell Carcinoma of Head and neck[accessedResource: DOID:5520][accessDate: 2009-11-30] DOID:5520 Carcinoma of Head and Neck[accessedResource: NCIt:C35850][accessDate: 2009-11-30] Head and Neck Carcinoma[accessedResource: NCIt:C35850][accessDate: 2009-11-30] Squamous cell Carcinoma of the Head and neck[accessedResource: DOID:5520][accessDate: 2009-11-30] Carcinoma of the Head and neck[accessedResource: DOID:5520][accessDate: 2009-11-30] Bornean Orangutan James Malone Pongo pygmaeus http://www.ebi.ac.uk/efo/EFO_0002653 BioportalImporter v.1.2 MAT:0000150 exoskeleton James Malone The outer non-living layer of the integumentary system derived from the epidermis.[accessedResource: FBbt:00004970][accessDate: 2009-11-30] FBbt:00004970 MO_953 Tomasz Adamusiak organism part comparison design TAO:0000163 renal system EMAPA:17366 FBbt:00005056 Urinary system[accessedResource: FMAID:7159][accessDate: 2009-11-30] WBbt:0005736 SAEL:116 ZFA:0000163 EV:0100095 MAT:0000027 EHDAA:5901 Systema urinaria[accessedResource: FMAID:7159][accessDate: 2009-11-30] FMAID:7159 renal/urinary system[accessedResource: MAT:0000027][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 XAO:0000143 TADS:0000162 Tomasz Adamusiak cingulate cortex NIFSTD:birnlex_934 James Malone cingulate cortex homogenate NCIt:C52713 BioportalImporter v.1.2 James Malone BioportalImporter v.1.2 1: The lower jaw of a vertebrate animal. n2. Either the upper or lower part of the beak in birds.[accessedResource: BTO:0001748][accessDate: 2009-11-30] lower jaw bone mandible BTO:0001748 Calu6 James Malone Ele Holloway CL:0000679 glutamatergic neuron James Malone GeneRIF:15002062 GeneRIF:14763917 DOID:11981 Morbid obesity (disorder)[accessedResource: DOID:11981][accessDate: 2009-11-30] morbid obesity ICD9:278.01 GeneRIF:16160866 NIFSTD:nlx_dys_20090303 GeneRIF:14764818 GeneRIF:12870165 GeneRIF:15235769 GeneRIF:12032643 The condition of weighing two, three, or more times the ideal weight, so called because it is associated with many serious and life-threatening disorders. In the BODY MASS INDEX, morbid obesity is defined as having a BMI greater than 40.0 kg/m2.[accessedResource: MSH:D009767][accessDate: 2009-11-30] James Malone GeneRIF:12883487 GeneRIF:15919838 GeneRIF:12032749 MSH:D009767 Tomasz Adamusiak GeneRIF:12148087 SNOMEDCT:238136002 Severe obesity[accessedResource: DOID:11981][accessDate: 2009-11-30] BioportalImporter v.1.2 GeneRIF:12647279 GeneRIF:16253647 GeneRIF:12822042 A central nervous system macrophage found in the parenchyma of the central nervous system.[accessedResource: CL:0000129][accessDate: 2009-11-30] BioportalImporter v.1.2 mixed glial cells (predominantly microglia) NIFSTD:sao789292116 James Malone BTO:0000078 microglial cell MERGED DEFINITION:nTARGET DEFINITION: The small, non-neural, interstitial cells of mesodermal origin that form part of the supporting structure of the central nervous system. They are of various forms and may have slender branched processes. They are migratory and act as phagocytes to waste products of nerve tissue. n--------------------nSOURCE DEFINITION: One of the small interstitial phagocytic cells of the microglia.[accessedResource: BTO:0000078][accessDate: 2009-11-30] Tomasz Adamusiak CL:0000129 microglia[accessedResource: CL:0000129][accessDate: 2009-11-30] hydrostatic pressure The pressure exerted by a liquid as a result of its potential energy, ignoring its kinetic energy. James Malone embryonic frontal ganglion FBbt:00005668 James Malone GeneRIF:16079893 James Malone SNOMEDCT:277575008 MSH:D015459 BioportalImporter v.1.2 T-Cell Type Acute Leukemia[accessedResource: NCIt:C3183][accessDate: 2009-11-30] T Acute Lymphoblastic Leukemia[accessedResource: NCIt:C3183][accessDate: 2009-11-30] GeneRIF:15827121 NCIt:C3183 Aggressive T-Cell malignancy with adult onset, caused by HUMAN T-LYMPHOTROPIC VIRUS 1. It is endemic in Japan, the Caribbean basin, Southeastern United States, Hawaii, and parts of Central and South America and sub-Saharan Africa.[accessedResource: MSH:D015459][accessDate: 2009-11-30] GeneRIF:16326981 GeneRIF:15472075 T-cell acute lymphoblastic leukemia DOID:5603 GeneRIF:15990867 GeneRIF:12970786 Acute T-Cell Leukemia[accessedResource: NCIt:C3183][accessDate: 2009-11-30] Precursor T Lymphoblastic Leukemia[accessedResource: DOID:5603][accessDate: 2009-11-30] Acute T-Cell Lymphocytic Leukemia[accessedResource: NCIt:C3183][accessDate: 2009-11-30] GeneRIF:11937265 T-ALL[accessedResource: NCIt:C3183][accessDate: 2009-11-30] T-cell acute lymphoblastic leukemia (disorder)[accessedResource: DOID:5603][accessDate: 2009-11-30] GeneRIF:16287841 Acute lymphoblastic leukemia of T-cell origin. It comprises about 15% of childhood cases and 25% of adult cases. It is more common in males than females. (WHO, 2001)[accessedResource: NCIt:C3183][accessDate: 2009-11-30] This type of acute lymphoblastic leukemia comprises about 15% of childhood cases and 25% of adult cases. It is more common in males than females. (WHO, 2001) [Source: NCI Thesaurus C3183] James Malone Ele Holloway NCIH1975 CS57625 http://www.arabidopsis.org/servlets/TairObject?id=1005158649&type=germplasm CS57625 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158649&type=germplasm James Malone BioportalImporter v.1.2 Hippocampus[accessedResource: NCIt:C22615][accessDate: 2009-11-30] CNS - Brain - Hippocampus (MMHCC)[accessedResource: NCIt:C22615][accessDate: 2009-11-30] NCIt:C22615 Obsolete - term hippocampus already exists obsolete_CNS brain hippocampus MMHCC true 1.8 class no longer needed for organizational purposes. Also hard to decide what an instance of a cell factor is. true obsolete_cell factor James Malone James Malone http://www.arabidopsis.org/servlets/TairObject?id=1005158872&type=germplasm CS57848 CS57848 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158872&type=germplasm James Malone BioportalImporter v.1.2 The fluid between the cell wall and the plasma membrane[accessedResource: MAT:0000348][accessDate: 2009-11-30] MAT:0000348 apoplasm apoplast[accessedResource: MAT:0000348][accessDate: 2009-11-30] A DNA sequencer is an instrument that determines the order of deoxynucleotides in deoxyribonucleic acid sequences.[accessedResource: OBI_0400103][accessDate: 2009-11-30] BioportalImporter v.1.2 OBI_0400103 MO_676 James Malone DNA sequencer James Malone BioportalImporter v.1.2 embryonic structure An embryonic specific part is an organism part which is specific to embryos. An anatomical structure that exists only before the organism is fully formed. In mammals, for example, a structure that exists only prior to the birth of the organism. This structure may be normal or abnormal.[accessedResource: BTO:0000174][accessDate: 2009-11-30] BTO:0000174 CS57549 James Malone http://www.arabidopsis.org/servlets/TairObject?id=1005158573&type=germplasm CS57549 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158573&type=germplasm James Malone CS57511 CS57511 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?type=stock&id=1000311932. http://www.arabidopsis.org/servlets/TairObject?type=stock&id=1000311932 replicate James Malone A role played by a a biological sample in the context of a microarray experiment where the intent is that biological or technical variation is measured. exposure to cigarette smoke exposure The act of subjecting someone or something to an influencing experience. E.g. exposure to cigarette smoke James Malone Common Chimpanzee http://www.ebi.ac.uk/efo/EFO_0002651 Pan troglodytes James Malone Tomasz Adamusiak Jie Zheng PMID:15356126 C57BL/6 congenically expressing H2g7 mouse strain. B6.H2_g7 MSH:D046152 GIST[accessedResource: DOID:9253][accessDate: 2009-11-30] DOID:9253 gastrointestinal stromal tumor Stromal tumor of Gastrointestinal tract[accessedResource: DOID:9253][accessDate: 2009-11-30] Gastrointestinal Stromal tumors[accessedResource: DOID:9253][accessDate: 2009-11-30] All tumors in the GASTROINTESTINAL TRACT arising from mesenchymal cells (MESODERM) except those of smooth muscle cells (LEIOMYOMA) or Schwann cells (SCHWANNOMA).[accessedResource: MSH:D046152][accessDate: 2009-11-30] BioportalImporter v.1.2 GANT[accessedResource: DOID:9253][accessDate: 2009-11-30] James Malone NIFSTD:birnlex_2110 Jie Zheng antibody An antibody function (or antigen binding function) is an infection-fighting protein molecule in blood or secretory fluids that tags, neutralizes, and helps destroy pathogenic microorganisms such as bacteria, viruses and toxins. James Malone MO_833 Tomasz Adamusiak James Malone GM12057 stage II endometrioid carcinoma James Malone James Malone Familial amyotrophic lateral sclerosis is a amyotrophic lateral sclerosis in which a family history of the disease exists. familial amyotrophic lateral sclerosis An agent that binds to but does not activate alpha-adrenergic receptors thereby blocking the actions of endogenous or exogenous alpha-adrenergic agonists. alpha-Adrenergic antagonists are used in the treatment of hypertension, vasospasm, peripheral vascular disease, shock, and pheochromocytoma.[accessedResource: CHEBI:37890][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 http://www.ebi.ac.uk/efo/EFO_0001863 alpha-adrenergic antagonist CHEBI:37890 HBL100 James Malone http://www.ebi.ac.uk/efo/EFO_0001899 drug role Any substance which when absorbed into a living organism may modify one or more of its functions. The term is generally accepted for a substance taken for a therapeutic purpose, but is also commonly used for abused substances.[accessedResource: CHEBI:23888][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 James Malone Ele Holloway 647V A hydroxyisoflavone that has formula C15H10O5.[accessedResource: CHEBI:28088][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 genistein 5,7-dihydroxy-3-(4-hydroxyphenyl)-4H-chromen-4-one[accessedResource: CHEBI:28088][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001542 CHEBI:28088 James Malone Temporal lobe is the ventrolateral lobe of five lobes comprising each cerebral hemisphere. It is bounded dorsally by the lateral fissure and posteriorly by an arbitrary border shared with the occipital lobe.[accessedResource: FMAID:61825][accessDate: 2009-11-30] BTO:0001355 One of the two parietal lobes of the brain located behind the frontal lobe at the top of the brain. Parietal Lobe, Right - Damage to this area can cause visuo-spatial deficits (e.g., the patient may have difficulty finding their way around new, or even familiar, places). Parietal Lobe, Left - Damage to this area may disrupt a patient's ability to understand spoken and/or written language. The parietal lobes contain the primary sensory cortex which controls sensation (touch, pressure). Behind the primary sensory cortex is a large association area that controls fine sensation (judgment of texture, weight, size, shape).[accessedResource: BTO:0001355][accessDate: 2009-11-30] Temporal cortex[accessedResource: FMAID:61825][accessDate: 2009-11-30] MAT:0000508 temporal lobe BioportalImporter v.1.2 EMAPA:18797 FMAID:61825 EV:0100169 James Malone larval day 5 ZFS:0000037 James Malone GM12146 OBI_0000275 analyte James Malone BioportalImporter v.1.2 Analyte role is a role borne by a molecular entity and realized in an analyte assay which achieves the objective to measure the magnitude/concentration/amount of the analyte in the entity bearing evaluant role[accessedResource: OBI_0000275][accessDate: 2009-11-30] Analyte role is a role borne by a material entity and realized by implementation of an analyte measuring assay with objective to detect the magnitude/concentration/ amount of the analyte in the entity bearing evaluant role. A slender, contractile, mesenchymal-like cell found in close association with capillary walls. They are relatively undifferentiated and may become fibroblasts, macrophages, or smooth muscle cells. (From Stedman, 26th ed).[accessedResource: CL:0000184][accessDate: 2009-11-30] pericyte Tomasz Adamusiak BioportalImporter v.1.2 NIFSTD:nifext_171 CL:0000184 N-methylformamide http://www.ebi.ac.uk/efo/EFO_0002732 Tomasz Adamusiak Ele Holloway CHEBI:7438 MAT:0000221 PO:0006308 ZEA:0015158 James Malone lateral root meristem OntologyMappingImporter following MAT:0000221 concentration unit Tomasz Adamusiak BioportalImporter v.1.2 http://www.ebi.ac.uk/efo/EFO_0001803 MO_61 A concentration unit is a dervied unit which represents a standard measurement of how much of a given substance there is mixed with another substance. Jie Zheng James Malone MO_86 A derived unit which represents a standard measurement of how much of a given substance there is mixed with another substance.[accessedResource: UO:0000051][accessDate: 2009-11-30] osmotic diuretic James Malone BioportalImporter v.1.2 CHEBI:50504 http://www.ebi.ac.uk/efo/EFO_0001888 Compound that increase urine volume by increasing the amount of osmotically active solute in the urine. It also increases the osmolarity of plasma.[accessedResource: CHEBI:50504][accessDate: 2009-11-30] James Malone http://www.informatics.jax.org/mgihome/nomen/strain_129.shtml 129/Sv 129/Sv is a substrain of the mouse strain 129 as described in Jackson Laboratory http://www.informatics.jax.org/mgihome/nomen/strain_129.shtml KIF5 Kif5 James Malone Ele Holloway MO_490 self vs self design Tomasz Adamusiak MO_832 Tomasz Adamusiak clinical history design CHEBI:22152 An apo carotenoid sesquiterpenoid that has formula C15H20O4.[accessedResource: CHEBI:22152][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001477 (2Z,4E)-5-(1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2-en-1-yl)-3-methylpenta-2,4-dienoic acid[accessedResource: CHEBI:22152][accessDate: 2009-11-30] BioportalImporter v.1.2 abscisic acid TAO:0000282 XAO:0000095 James Malone BioportalImporter v.1.2 ZFA:0000034 MAT:0000249 a line of neuroblasts along the sides of fish and amphibia that detect vibrations and pressure changes[accessedResource: MAT:0000249][accessDate: 2009-11-30] AAO:0000269 MFO:0003620 lateral line system James Malone BioportalImporter v.1.2 UO:0000036 year A year is a derived time unit which is equal to 365.25 days. A time unit which is equal to 12 months which is science is taken to be equal to 365.25 days.[accessedResource: UO:0000036][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001725 HCC1187 James Malone http://www.ebi.ac.uk/efo/EFO_0001681 James Malone BioportalImporter v.1.2 UO:0000004 An electric current unit is a base unit which is a standard measure of the flow of electric charge. A base unit which is a standard measure of the flow of electric charge.[accessedResource: UO:0000004][accessDate: 2009-11-30] electric current unit U937 James Malone Blood present in the umbilical vessels at the time of delivery. If cryopreserved at birth, cord blood can serve as a source of autologous lymphocytes for transplantation to a patient later diagnosed and treated for leukemia or lymphoma.[accessedResource: NCIt:C13300][accessDate: 2009-11-30] Cord Blood[accessedResource: NCIt:C13300][accessDate: 2009-11-30] umbilical cord blood NCIt:C13300 James Malone BioportalImporter v.1.2 Tomasz Adamusiak diffuse large B-cell lymphoma NCIt:C8851 129xC57BL/6 is a substrain of the mouse strain 129 as described in article PUBMED ID 15015938 PUBMED ID: 15015938 129xC57BL/6 James Malone NCIH2405 James Malone Ele Holloway CHEBI:53448 Tomasz Adamusiak Ele Holloway methyl cellulose http://www.ebi.ac.uk/efo/EFO_0002735 A heating block is an instrument or part of an instrument which raises or maintains the temperature of a sample to a defined constant temperature during certain parts of an assay[accessedResource: OBI_0400108][accessDate: 2009-11-30] OBI_0400108 MO_663 James Malone BioportalImporter v.1.2 heating block MA:0000057 BioportalImporter v.1.2 A mammalian heat-producing tissue occurring especially in human newborns and in hibernators.[accessedResource: BTO:0000156][accessDate: 2009-11-30] James Malone BTO:0000156 MAT:0000198 NCIt:C22704 Brown Adipose Tissue[accessedResource: NCIt:C22704][accessDate: 2009-11-30] brown fat Adipose Tissue - Brown (MMHCC)[accessedResource: NCIt:C22704][accessDate: 2009-11-30] SNOMEDCT:409704009 Neurinoma[accessedResource: NCIt:C3269][accessDate: 2009-11-30] NCIt:C6556 GeneRIF:12118253 SNOMEDCT:404022001 A tumor of the peripheral nervous system composed of neoplastic Schwann cells. The vast majority of schwannomas follow a benign clinical course. Only rare cases associated with a malignant clinical course have been reported.[accessedResource: NCIt:C3269][accessDate: 2009-11-30] Psammomatous schwannoma[accessedResource: DOID:3192][accessDate: 2009-11-30] Ancient Neurilemmoma[accessedResource: NCIt:C6556][accessDate: 2009-11-30] NIFSTD:birnlex_12603 BioportalImporter v.1.2 James Malone GeneRIF:14566860 Degenerated Neurilemmoma[accessedResource: NCIt:C6556][accessDate: 2009-11-30] MSH:D009442 SNOMEDCT:404023006 Neurilemmoma[accessedResource: NCIt:C3269][accessDate: 2009-11-30] GeneRIF:12665675 SNOMEDCT:985004 NCIt:C3269 GeneRIF:12444102 GeneRIF:13679444 GeneRIF:14612918 Neurilemmoma (disorder)[accessedResource: DOID:3192][accessDate: 2009-11-30] Ancient Schwannoma[accessedResource: NCIt:C6556][accessDate: 2009-11-30] Tomasz Adamusiak GeneRIF:15837555 Degenerated Schwannoma[accessedResource: NCIt:C6556][accessDate: 2009-11-30] GeneRIF:15850583 schwannoma A neoplasm that arises from SCHWANN CELLS of the cranial, peripheral, and autonomic nerves. Clinically, these tumors may present as a cranial neuropathy, abdominal or soft tissue mass, intracranial lesion, or with spinal cord compression. Histologically, these tumors are encapsulated, highly vascular, and composed of a homogenous pattern of biphasic fusiform-shaped cells that may have a palisaded appearance. (From DeVita Jr et al., Cancer: Principles and Practice of Oncology, 5th ed, pp964-5)[accessedResource: MSH:D009442][accessDate: 2009-11-30] DOID:3192 James Malone Ele Holloway SCN2.2 BTO:0001408 locus coeruleus James Malone CHEBI:18222 xylose http://www.ebi.ac.uk/efo/EFO_0002681 GM12716 James Malone Tomasz Adamusiak Jie Zheng progenitor cell of endocrine pancreas http://en.wikipedia.org/wiki/Pancreas SNU5 James Malone Ele Holloway James Malone BioportalImporter v.1.2 An acute viral infection of the respiratory tract, occurring in isolated cases, in epidemics, or in pandemics; it is caused by serologically different strains of viruses (influenzaviruses) designated A, B, and C, has a 3-day incubation period, and usually lasts for 3 to 10 days. It is marked by inflammation of the nasal mucosa, pharynx, and conjunctiva; headache; myalgia; often fever, chills, and prostration; and occasionally involvement of the myocardium or central nervous system.[accessedResource: NCIt:C53482][accessDate: 2009-11-30] influenza NCIt:C53482 EV:0100153 EMAPA:17528 FBbt:00005401 BioportalImporter v.1.2 AAO:0000143 James Malone The outer epithelial layer of the external integument of the animal body that is derived from the embryonic epiblast; specifically: the outer nonsensitive and nonvascular layer of the skin of a vertebrate that overlies the dermis.[accessedResource: BTO:0000404][accessDate: 2009-11-30] SAEL:35 FMAID:70596 TADS:0000109 BTO:0000404 MA:0000153 MAT:0000154 ZFA:0000105 epidermis WBbt:0005733 http://www.arabidopsis.org/servlets/TairObject?id=1005158755&type=germplasm CS57731 James Malone CS57731 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158755&type=germplasm James Malone Ele Holloway benign insulitis NCIH1395 James Malone Ele Holloway primary cells phytohormone James Malone CHEBI:26158 http://www.ebi.ac.uk/efo/EFO_0001829 MDAMB175VII James Malone James Malone smooth muscle MAT:0000303 FBbt:00003525 Muscle tissue that lacks cross striations, that is made up of elongated spindle-shaped cells having a central nucleus, and that is found in vertebrate visceral structures (as the stomach and bladder) as thin sheets performing functions not subject to conscious control by the mind and in all or most of the musculature of invertebrates other than arthropods.[accessedResource: BTO:0001260][accessDate: 2009-11-30] SAEL:97 EV:0100378 BTO:0001260 BioportalImporter v.1.2 XAO:0000175 Knock in expression is a process in which a gene is replaced by an altered version of the same gene using homologous recombination resulting in a gain of function. James Malone knock in expression James Malone Ele Holloway P3HR1 http://www.arabidopsis.org/servlets/TairObject?id=1005158928&type=germplasm CS57904 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158928&type=germplasm CS57904 James Malone SW982 James Malone Ele Holloway obsolete_GM12892 James Malone duplicate with EFO_0002786 true 2.1 BJABK3 James Malone EV:0100377 James Malone skeletal muscle MAT:0000302 FMAID:5022 BioportalImporter v.1.2 skeletal muscle cell[accessedResource: BTO:0001103][accessDate: 2009-11-30] XAO:0000174 EMAPA:17745 SAEL:94 BFBbt:00003259 A usually voluntary muscle made up of elongated, multinucleated, transversely striated muscle fibers, having principally bony attachments.[accessedResource: BTO:0001103][accessDate: 2009-11-30] Nonparenchymatous organ that primarily consists of skeletal muscle tissue aggregated into macroscopic fasciculi by connective tissue; together with other muscles, it constitutes the muscular system. Examples: biceps, diaphragm, masseter, right third external intercostal muscle, external oblique, levator ani, serratus anterior.[accessedResource: FMAID:5022][accessDate: 2009-11-30] EHDAA:5031 skeletal muscle system[accessedResource: MAT:0000302][accessDate: 2009-11-30] BTO:0001103 EHDAA:2183 MA:0000127 James Malone FMAID:13889 Pituitary gland[accessedResource: FMAID:13889][accessDate: 2009-11-30] Hypophysis cerebri[accessedResource: FMAID:13889][accessDate: 2009-11-30] BioportalImporter v.1.2 XAO:0000161 EMAPA:16724 MAT:0000077 BTO:0001073 SAEL:83 EV:0100132 A small oval endocrine organ that is attached to the infundibulum of the brain, consists of an epithelial anterior lobe joined by an intermediate part to a posterior lobe of nervous origin, and produces various internal secretions directly or indirectly impinging on most basic body functions.[accessedResource: BTO:0001073][accessDate: 2009-11-30] ZFA:0000118 pituitary James Malone BioportalImporter v.1.2 atopic eczema SNOMEDCT:200769008 ICD9:691.8 ICD9:691 DOID:2771 James Malone A milligram is a mass unit which is equal to one-millionth of a kilogram. BioportalImporter v.1.2 MO_949 A mass unit which is equal to one thousandth of a gram or 10^[-3] g.[accessedResource: UO:0000022][accessDate: 2009-11-30] milligram Jie Zheng Tomasz Adamusiak mg[accessedResource: UO:0000022][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001706 B140P James Malone Ele Holloway James Malone CS57842 http://www.arabidopsis.org/servlets/TairObject?id=1005158866&type=germplasm CS57842 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158866&type=germplasm EB1 James Malone Ele Holloway CS57699 CS57699 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158723&type=germplasm http://www.arabidopsis.org/servlets/TairObject?id=1005158723&type=germplasm James Malone SR James Malone Ele Holloway Tomasz Adamusiak nucleus accumbens core birn_anat:nlx_anat_20090306 FMAID:77383 Tests and results for pathogens infecting organism from which the biosource is derived MO_184 Tomasz Adamusiak Jie Zheng pathogen test BTO:0001188 MAT:0000005 The usually underground part of a seed plant body that originates usually from the hypocotyl, functions as an organ of absorption, aeration, and food storage or as a means of anchorage and support, and differs from a stem especially in lacking nodes, buds, and leaves.[accessedResource: BTO:0001188][accessDate: 2009-11-30] root PO:0009005 BioportalImporter v.1.2 James Malone ZEA:0015034 BioportalImporter v.1.2 SNOMEDCT:2492009 Nutrition disorder[accessedResource: DOID:374][accessDate: 2009-11-30] Nutritional disorder (disorder)[accessedResource: DOID:374][accessDate: 2009-11-30] Disorders caused by nutritional imbalance, either overnutrition or undernutrition.[accessedResource: MSH:D009748][accessDate: 2009-11-30] James Malone NCIt:C26836 MSH:D009748 nutritional disorder DOID:374 disorder of nutrition[accessedResource: DOID:374][accessDate: 2009-11-30] FMAID:3804 proximal portion of right coronary artery First segment of right coronary artery[accessedResource: FMAID:3804][accessDate: 2009-11-30] Anterior segment of right coronary artery[accessedResource: FMAID:3804][accessDate: 2009-11-30] Tomasz Adamusiak Jie Zheng BioportalImporter v.1.2 MAT:0000074 EMAPA:16033 XAO:0000035 BioportalImporter v.1.2 FBdv:00005288 ZFA:0000001 zygote[accessedResource: MAT:0000074][accessDate: 2009-11-30] EHDAA:27 ZFS:0000001 James Malone EVM:2990001 MFO:0005280 fertilized egg stage saline HDMYZ James Malone Ele Holloway Theiler stage 11 Tomasz Adamusiak Jie Zheng birnlex_7062 Carcinoma of colon (disorder)[accessedResource: DOID:1520][accessDate: 2009-11-30] GeneRIF:14566823 colon carcinoma NCIt:C4910 A malignant tumor usually arising from the epithelium lining the large intestinal mucosa. Colon carcinoma is one of the most common malignancies in both males and females, and is especially common in North America and Europe. Grossly, most colon carcinomas are polypoid or ulcerating lesions. Microscopically, adenocarcinoma is the most frequently seen morphologic subtype. Prognosis depends on the stage of the disease (depth of invasion, metastasis to regional/distal lymph nodes or other anatomic sites). -- 2004[accessedResource: NCIt:C4910][accessDate: 2009-11-30] Colon Cancer[accessedResource: NCIt:C4910][accessDate: 2009-11-30] GeneRIF:12517779 GeneRIF:15655830 GeneRIF:11731434 GeneRIF:15637741 GeneRIF:12149254 GeneRIF:12515621 GeneRIF:11819805 GeneRIF:16164044 GeneRIF:12847090 GeneRIF:12466967 GeneRIF:12427560 DOID:1520 GeneRIF:16199102 GeneRIF:12189558 GeneRIF:14691449 GeneRIF:12055189 GeneRIF:12090473 GeneRIF:12664617 GeneRIF:15559761 GeneRIF:15454490 GeneRIF:15750621 GeneRIF:12151344 GeneRIF:12820726 GeneRIF:16278666 GeneRIF:15259074 GeneRIF:12209584 GeneRIF:11920461 GeneRIF:14500642 GeneRIF:15688023 James Malone GeneRIF:14581351 GeneRIF:15492751 Carcinoma of the Colon[accessedResource: NCIt:C4910][accessDate: 2009-11-30] GeneRIF:14533006 GeneRIF:15942645 GeneRIF:14707484 Carcinoma of colon[accessedResource: DOID:1520][accessDate: 2009-11-30] GeneRIF:16192633 GeneRIF:12957362 GeneRIF:12030384 GeneRIF:12670495 GeneRIF:15480430 GeneRIF:12697807 Colonic Carcinoma[accessedResource: DOID:1520][accessDate: 2009-11-30] SNOMEDCT:269533000 GeneRIF:12210751 GeneRIF:12185585 GeneRIF:15632146 GeneRIF:14715257 BioportalImporter v.1.2 C4I James Malone Ele Holloway NCI Metathesaurus: C0038445 stria vascularis NIFSTD:birnlex_2525 A stria vascularis is part of a cochlea and is the upper part of the spiral ligament of thescala media that contains numerous small blood vessels. The upper part of the spiral ligament of the scala media that contains numerous small blood vessels;nA layer of vascular tissue consisting of epithelial cells, mesothelial cells, and probably some neuroectoderm; it covers the outer wall of the cochlear duct and is thought to secrete the endolymph.[accessedResource: BTO:0001819][accessDate: 2009-11-30] Tomasz Adamusiak BioportalImporter v.1.2 BTO:0001819 James Malone GeneRIF:15292466 GeneRIF:14713387 GeneRIF:15070960 GeneRIF:15111497 GeneRIF:12882938 GeneRIF:16204364 GeneRIF:15448103 GeneRIF:15472174 GeneRIF:14742836 GeneRIF:12436346 GeneRIF:16005429 GeneRIF:15340111 GeneRIF:15919838 GeneRIF:12037740 GeneRIF:15936463 GeneRIF:14642613 GeneRIF:13129857 GeneRIF:12393670 GeneRIF:15979049 GeneRIF:12466947 GeneRIF:15845877 GeneRIF:12401709 GeneRIF:15841306 GeneRIF:15978107 GeneRIF:16167150 GeneRIF:11739396 GeneRIF:15897474 GeneRIF:12086965 GeneRIF:15635487 GeneRIF:11896485 GeneRIF:12429884 GeneRIF:15806395 GeneRIF:11816701 GeneRIF:15616040 GeneRIF:15780823 GeneRIF:12720538 GeneRIF:12424252 GeneRIF:15070774 GeneRIF:15472203 GeneRIF:15323067 GeneRIF:12529499 GeneRIF:16123197 GeneRIF:15281018 GeneRIF:15126243 GeneRIF:12399252 GeneRIF:15889232 GeneRIF:9205417 ICD9:278.00 GeneRIF:14504270 GeneRIF:15867334 GeneRIF:12805399 GeneRIF:15009470 GeneRIF:12488352 GeneRIF:12634434 GeneRIF:12429880 GeneRIF:15076153 GeneRIF:15946750 GeneRIF:14602788 GeneRIF:15806598 GeneRIF:12597523 GeneRIF:16030156 GeneRIF:15367397 GeneRIF:12856128 GeneRIF:12660878 GeneRIF:12045256 GeneRIF:12869354 GeneRIF:15942768 GeneRIF:12193546 GeneRIF:12658019 GeneRIF:15254878 GeneRIF:15601967 GeneRIF:15369797 GeneRIF:14525909 GeneRIF:16092047 GeneRIF:12375583 GeneRIF:12524228 GeneRIF:16046411 GeneRIF:15795809 GeneRIF:12899679 GeneRIF:12791674 GeneRIF:15955385 GeneRIF:12765968 GeneRIF:12133430 GeneRIF:15795426 GeneRIF:16180331 GeneRIF:14646408 GeneRIF:15731326 Tomasz Adamusiak GeneRIF:15331533 GeneRIF:14715842 GeneRIF:15870101 GeneRIF:15930442 Obese (finding)[accessedResource: DOID:9970][accessDate: 2009-11-30] GeneRIF:14993225 GeneRIF:15355432 GeneRIF:16222046 GeneRIF:15114524 GeneRIF:14663468 GeneRIF:12075569 GeneRIF:16054046 GeneRIF:12364441 GeneRIF:16200066 GeneRIF:12690079 GeneRIF:16048795 GeneRIF:15292306 GeneRIF:12499395 BioportalImporter v.1.2 GeneRIF:12519856 GeneRIF:15536594 GeneRIF:15090636 GeneRIF:15292322 GeneRIF:12603007 GeneRIF:12968669 GeneRIF:15864530 GeneRIF:12435081 GeneRIF:15677498 GeneRIF:15240652 GeneRIF:12488961 GeneRIF:12033496 GeneRIF:12915696 GeneRIF:15055256 GeneRIF:14968297 GeneRIF:15476445 GeneRIF:12079879 GeneRIF:15939106 GeneRIF:15789277 GeneRIF:16054069 GeneRIF:15778720 GeneRIF:15070936 GeneRIF:15001632 GeneRIF:15331535 GeneRIF:12619866 GeneRIF:12925533 GeneRIF:12970296 GeneRIF:15886715 GeneRIF:15897476 GeneRIF:16135994 GeneRIF:15588160 GeneRIF:15596147 GeneRIF:12519848 GeneRIF:12508940 GeneRIF:15181046 GeneRIF:15002062 GeneRIF:12093799 GeneRIF:12083814 GeneRIF:15297289 GeneRIF:15220220 GeneRIF:15193430 GeneRIF:15959417 GeneRIF:15576462 GeneRIF:15798948 GeneRIF:15169894 GeneRIF:12569166 Obesity [Ambiguous][accessedResource: DOID:9970][accessDate: 2009-11-30] GeneRIF:12601637 GeneRIF:15277448 GeneRIF:15972581 GeneRIF:12217430 GeneRIF:15944845 GeneRIF:14693717 GeneRIF:12050239 GeneRIF:12050272 GeneRIF:15208271 GeneRIF:12213872 GeneRIF:15604363 GeneRIF:11866034 GeneRIF:15550470 GeneRIF:15834545 GeneRIF:15533384 GeneRIF:15336575 GeneRIF:12490667 GeneRIF:14660752 GeneRIF:12788932 GeneRIF:12529498 GeneRIF:14674682 GeneRIF:15063110 GeneRIF:14657411 GeneRIF:14726256 GeneRIF:11890967 GeneRIF:12829658 GeneRIF:11941369 GeneRIF:12055326 obesity GeneRIF:15811564 GeneRIF:12767044 GeneRIF:12053815 GeneRIF:14742837 GeneRIF:11872365 GeneRIF:15042014 GeneRIF:12540600 GeneRIF:15466016 GeneRIF:12855752 GeneRIF:12888635 GeneRIF:16054054 GeneRIF:12925701 GeneRIF:15166310 GeneRIF:15051828 GeneRIF:14660566 GeneRIF:12006640 GeneRIF:14693721 GeneRIF:15878965 SNOMEDCT:414915002 GeneRIF:15654325 GeneRIF:16224049 GeneRIF:15292330 GeneRIF:14746672 GeneRIF:15613432 GeneRIF:12949354 GeneRIF:15916056 GeneRIF:12920182 GeneRIF:15660115 GeneRIF:12765950 GeneRIF:15156315 GeneRIF:11956156 GeneRIF:15797871 Obesity NOS[accessedResource: DOID:9970][accessDate: 2009-11-30] GeneRIF:16030142 GeneRIF:12574803 GeneRIF:15365617 GeneRIF:12086946 GeneRIF:15919794 GeneRIF:14671185 GeneRIF:15985479 GeneRIF:12609752 GeneRIF:15181539 GeneRIF:16102992 GeneRIF:15563274 GeneRIF:12728641 GeneRIF:11829746 GeneRIF:15063799 GeneRIF:15910756 GeneRIF:12865257 GeneRIF:11718682 GeneRIF:12226142 GeneRIF:15685173 GeneRIF:15855349 GeneRIF:15220187 GeneRIF:12660883 GeneRIF:15044674 GeneRIF:15087473 GeneRIF:12730403 GeneRIF:15862893 GeneRIF:15070922 GeneRIF:15292320 GeneRIF:12531492 GeneRIF:12101250 GeneRIF:16288749 GeneRIF:12032748 A status with BODY WEIGHT that is grossly above the acceptable or desirable weight, usually due to accumulation of excess FATS in the body. The standards may vary with age, sex, genetic or cultural background. In the BODY MASS INDEX, a BMI greater than 30.0 kg/m2 is considered obese, and a BMI greater than 40.0 kg/m2 is considered morbidly obese (MORBID OBESITY).[accessedResource: MSH:D009765][accessDate: 2009-11-30] GeneRIF:12843170 GeneRIF:15601970 GeneRIF:12910269 GeneRIF:12483461 GeneRIF:12951617 GeneRIF:12769595 GeneRIF:15337759 GeneRIF:12429872 GeneRIF:16166222 GeneRIF:15231997 GeneRIF:12810555 GeneRIF:15181048 GeneRIF:12133431 GeneRIF:12765952 GeneRIF:12163041 GeneRIF:16021472 GeneRIF:16027245 SNOMEDCT:414916001 GeneRIF:15034227 GeneRIF:15382608 GeneRIF:12447443 GeneRIF:12529491 GeneRIF:12189588 GeneRIF:15583845 GeneRIF:12032760 GeneRIF:12161541 GeneRIF:12824951 GeneRIF:14600075 GeneRIF:15314024 GeneRIF:15314181 GeneRIF:15198934 GeneRIF:12788860 GeneRIF:12161058 GeneRIF:12900437 GeneRIF:12860835 GeneRIF:14567496 GeneRIF:16222047 Obesity, unspecified[accessedResource: DOID:9970][accessDate: 2009-11-30] GeneRIF:12530526 GeneRIF:12365916 NIFSTD:nlx_dys_20090302 GeneRIF:11996962 GeneRIF:12552573 GeneRIF:12727947 GeneRIF:11800057 GeneRIF:15168018 GeneRIF:12385894 GeneRIF:15518421 GeneRIF:15102885 GeneRIF:15864349 GeneRIF:12540594 GeneRIF:12716769 GeneRIF:14970363 GeneRIF:15869602 GeneRIF:15048662 GeneRIF:12097321 GeneRIF:15520868 GeneRIF:12402973 GeneRIF:15037865 GeneRIF:15223990 GeneRIF:12484512 GeneRIF:12746756 GeneRIF:15191885 GeneRIF:15123613 GeneRIF:12851317 GeneRIF:15823758 James Malone GeneRIF:15220914 GeneRIF:15994342 GeneRIF:14627764 GeneRIF:15769985 GeneRIF:15010337 GeneRIF:15070954 GeneRIF:12370125 GeneRIF:15598678 GeneRIF:12734779 GeneRIF:16186392 GeneRIF:12960041 GeneRIF:15743038 GeneRIF:14739355 GeneRIF:12882843 GeneRIF:14701677 GeneRIF:15448102 GeneRIF:15533361 GeneRIF:12175706 GeneRIF:11923308 GeneRIF:15494612 GeneRIF:15024085 GeneRIF:15382611 GeneRIF:15292348 GeneRIF:11912547 GeneRIF:15905321 GeneRIF:12031976 GeneRIF:15467829 GeneRIF:11791158 GeneRIF:15579796 GeneRIF:15601832 GeneRIF:12663465 GeneRIF:15735230 GeneRIF:16186414 GeneRIF:15854142 GeneRIF:15386812 GeneRIF:15331532 GeneRIF:12213628 GeneRIF:12690102 GeneRIF:12213908 GeneRIF:12401727 GeneRIF:15298982 GeneRIF:12855762 GeneRIF:12660874 GeneRIF:14671186 GeneRIF:12507421 GeneRIF:11970899 GeneRIF:12177411 GeneRIF:14747205 GeneRIF:14747301 GeneRIF:16186410 GeneRIF:12364457 GeneRIF:15653680 GeneRIF:12409311 GeneRIF:12161552 GeneRIF:12086939 GeneRIF:14642615 GeneRIF:12902351 GeneRIF:15889231 GeneRIF:14551151 GeneRIF:15941924 GeneRIF:14707164 GeneRIF:15070752 GeneRIF:15522943 GeneRIF:15855321 GeneRIF:14715869 GeneRIF:12353079 GeneRIF:15181040 GeneRIF:11821707 GeneRIF:14625134 GeneRIF:12582011 GeneRIF:15919839 GeneRIF:14722031 GeneRIF:14764817 GeneRIF:15678704 GeneRIF:15897480 GeneRIF:16249436 GeneRIF:12068290 GeneRIF:15292352 GeneRIF:12642576 GeneRIF:12855749 GeneRIF:12387862 MSH:D009765 GeneRIF:15500001 GeneRIF:15770500 GeneRIF:12746327 GeneRIF:15637293 GeneRIF:15928242 GeneRIF:15919834 GeneRIF:15919835 GeneRIF:15746153 GeneRIF:15248831 GeneRIF:15983230 GeneRIF:12165561 GeneRIF:15890776 GeneRIF:14747283 GeneRIF:15334374 GeneRIF:15331564 ICD9:278.0 GeneRIF:12756299 GeneRIF:12480555 GeneRIF:14642408 GeneRIF:12739015 GeneRIF:12213871 GeneRIF:12865337 GeneRIF:15277400 GeneRIF:15845623 GeneRIF:14759071 GeneRIF:11739957 GeneRIF:15271881 GeneRIF:12376184 GeneRIF:14657196 GeneRIF:12075576 GeneRIF:12829631 Obesity (disorder)[accessedResource: DOID:9970][accessDate: 2009-11-30] GeneRIF:12679463 GeneRIF:15220189 GeneRIF:12716767 GeneRIF:15688209 GeneRIF:11972291 GeneRIF:16260612 GeneRIF:15538935 GeneRIF:11882520 GeneRIF:14715497 GeneRIF:11882596 GeneRIF:15315911 GeneRIF:12032749 GeneRIF:12032642 GeneRIF:15677759 GeneRIF:15620432 GeneRIF:15522935 GeneRIF:15797955 GeneRIF:11916923 GeneRIF:15459958 GeneRIF:12598526 GeneRIF:12429873 GeneRIF:12634439 GeneRIF:12958061 GeneRIF:12055319 GeneRIF:15625086 GeneRIF:12861009 GeneRIF:12923129 GeneRIF:15070780 GeneRIF:16009937 GeneRIF:15781751 GeneRIF:12161655 GeneRIF:14637275 DOID:9970 GeneRIF:15057669 GeneRIF:14691540 GeneRIF:15920074 GeneRIF:15570174 GeneRIF:11822583 GeneRIF:12099975 GeneRIF:14682470 GeneRIF:15855351 GeneRIF:14683458 GeneRIF:15358131 GeneRIF:15202783 GeneRIF:12160996 GeneRIF:15616037 GeneRIF:12364415 GeneRIF:12885755 GeneRIF:15820771 GeneRIF:15111524 GeneRIF:12727933 GeneRIF:12165748 GeneRIF:12805252 GeneRIF:12730030 GeneRIF:12080444 GeneRIF:15055467 GeneRIF:11738809 GeneRIF:15855322 GeneRIF:16123358 GeneRIF:15531738 GeneRIF:12649573 GeneRIF:12032637 GeneRIF:16123374 GeneRIF:12869545 GeneRIF:15923630 GeneRIF:12145151 GeneRIF:12716739 GeneRIF:12750152 GeneRIF:14673524 GeneRIF:15001633 GeneRIF:15983201 disease A disease is a disposition that describes states of disease associated with a particular sample and/or organism. James Malone true James Malone Ele Holloway BC-2 MOLT16 James Malone Ele Holloway ICD9:207.00 ICD9:207.0 DOID:1239 James Malone BioportalImporter v.1.2 acute erythroid leukemia ZFS:0000042 James Malone juvenile days 30-44 CHEBI:41922 4,4'-(3E)-hex-3-ene-3,4-diyldiphenol[accessedResource: CHEBI:41922][accessDate: 2009-11-30] BioportalImporter v.1.2 http://www.ebi.ac.uk/efo/EFO_0001522 diethylstilbestrol James Malone An estrogen that has formula C18H20O2.[accessedResource: CHEBI:41922][accessDate: 2009-11-30] James Malone An embryonic (precursor) cell of the myogenic lineage that develops from the mesoderm. They undergo proliferation, migrate to their various sites, and then differentiate into the appropriate form of myocytes.[accessedResource: CL:0000056][accessDate: 2009-11-30] myoblast An embryonic cell that becomes a cell of muscle fiber.[accessedResource: BTO:0000222][accessDate: 2009-11-30] nonmesodermal cell BioportalImporter v.1.2 BTO:0000222 CL:0000056 SN56.B5.G4 James Malone Ele Holloway A class of large neuroglial (macroglial) cells in the central nervous system. Form the insulating myelin sheath of axons in the central nervous system.[accessedResource: CL:0000128][accessDate: 2009-11-30] oligodendrocyte NIFSTD:sao844118448 CL:0000128 Tomasz Adamusiak BioportalImporter v.1.2 Tomasz Adamusiak James Malone A precursor is a tissue modifier describing a substance, cell, or cellular component from which another substance, cell, or cellular component is formed. For example, muscle precursor cell. muscle precursor cell precursor NIFSTD:sao2146594471 MAT:0000481 MA:0000113 EV:0100312 Any of the three membranes that envelop the brain and spinal cord.[accessedResource: BTO:0000144][accessDate: 2009-11-30] BTO:0000144 FMAID:9589 BioportalImporter v.1.2 SAEL:66 MAT:0000113 James Malone EMAPA:17764 EHDAA:3688 meninges GeneRIF:14514642 SNOMEDCT:315299009 GeneRIF:12196481 GeneRIF:12149242 Hyperglycemia (context-dependent category)[accessedResource: DOID:4195][accessDate: 2009-11-30] GeneRIF:15561954 GeneRIF:15845625 GeneRIF:14984315 GeneRIF:14578285 GeneRIF:14749287 GeneRIF:12963802 GeneRIF:12759458 GeneRIF:12376320 GeneRIF:15855318 GeneRIF:11959624 GeneRIF:12645629 GeneRIF:12453975 GeneRIF:15259033 GeneRIF:15985479 GeneRIF:15486815 GeneRIF:15868137 GeneRIF:15662550 GeneRIF:12107734 DOID:4195 GeneRIF:12464674 GeneRIF:12522068 GeneRIF:15899886 GeneRIF:14534319 GeneRIF:15561908 GeneRIF:12137596 GeneRIF:12736712 GeneRIF:15993383 GeneRIF:15277392 GeneRIF:15899957 GeneRIF:14678947 GeneRIF:12655575 BioportalImporter v.1.2 GeneRIF:15148392 James Malone SNOMEDCT:80394007 GeneRIF:12765965 Hyperglycemia (disorder)[accessedResource: DOID:4195][accessDate: 2009-11-30] GeneRIF:15920055 GeneRIF:15501243 GeneRIF:14673082 hyperglycemia GeneRIF:15616014 GeneRIF:16301823 GeneRIF:15677479 GeneRIF:15033467 GeneRIF:15191885 GeneRIF:12819007 Abnormally high BLOOD GLUCOSE level.[accessedResource: MSH:D006943][accessDate: 2009-11-30] GeneRIF:12482638 Hyperglycaemia[accessedResource: DOID:4195][accessDate: 2009-11-30] GeneRIF:15848159 MSH:D006943 GeneRIF:14751239 GeneRIF:15010337 GeneRIF:15956778 GeneRIF:14698990 GeneRIF:12860835 BTO:0002675 Paired neuropil structure, situated postero-dorsally in the protocerebrum, which are thought to be crucial to olfactory associative learning and memory. Mushroom bodies are divided into: the calyx, closest to the cortex, which receives sensory interneuron afferents; a thick axon bundle called the pedunculus, which extends from the calyx to the base of the lobes; the mushroom body lobe system consisting of a vertical branch composed of two intertwined lobes (alpha and alpha') and a medial branch consisting of three parallel lobes (beta, beta' and gamma).[accessedResource: FBbt:00005801][accessDate: 2009-11-30] BioportalImporter v.1.2 MAT:0000336 corpora pedunculata[accessedResource: FBbt:00005801][accessDate: 2009-11-30] FBbt:00005801 The Drosophila mushroom bodies (MBs), paired brain structures composed of vertical and medial lobes, achieve their final organization at metamorphosis.[accessedResource: BTO:0002675][accessDate: 2009-11-30] James Malone mushroom body CS57664 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158690&type=germplasm James Malone CS57666 http://www.arabidopsis.org/servlets/TairObject?id=1005158690&type=germplasm GLI72 James Malone NCIt:C26788 chronic granulomatous disease Congenital dysphagocytosis[accessedResource: DOID:3265][accessDate: 2009-11-30] GeneRIF:15777347 BioportalImporter v.1.2 MSH:D006105 GeneRIF:16138344 A recessive X-linked defect of leukocyte function in which phagocytic cells ingest but fail to digest bacteria, resulting in recurring bacterial infections with granuloma formation.[accessedResource: MSH:D006105][accessDate: 2009-11-30] James Malone chronic granulomatous disease (disorder)[accessedResource: DOID:3265][accessDate: 2009-11-30] GeneRIF:12817011 GeneRIF:11462241 GeneRIF:12073015 GeneRIF:12589359 GeneRIF:15507755 CGD[accessedResource: NCIt:C26788][accessDate: 2009-11-30] SNOMEDCT:387759001 DOID:3265 GeneRIF:12213046 Congenital dysphagocytosis (disorder)[accessedResource: DOID:3265][accessDate: 2009-11-30] SNOMEDCT:191352003 James Malone Ele Holloway SW948 ZFS:0000026 segmentation 14-19 somites James Malone MAT:0000338 BioportalImporter v.1.2 EHDAA:2893 The peripheral nervous system (PNS) connects the central nervous system (CNS) to sensory organs (such as the eye and ear), other organs of the body, muscles, blood vessels and glands.[accessedResource: BTO:0001028][accessDate: 2009-11-30] TADS:0000221 XAO:0000178 The outer parts of the nervous system that perform sensory and motor functions.[accessedResource: FBbt:00005098][accessDate: 2009-11-30] peripheral nervous system EMAPA:16665 BTO:0001028 AAO:0000429 FBbt:00005098 James Malone PNS James Malone Ele Holloway A673 HCC1569 James Malone haloperidol BioportalImporter v.1.2 http://www.ebi.ac.uk/efo/EFO_0001549 CHEBI:5613 4-[4-(4-chlorophenyl)-4-hydroxypiperidin-1-yl]-1-(4-fluorophenyl)butan-1-one[accessedResource: CHEBI:5613][accessDate: 2009-11-30] A hydroxypiperidine that has formula C21H23ClFNO2.[accessedResource: CHEBI:5613][accessDate: 2009-11-30] James Malone MAT:0000025 AAO:0000307 MA:0000015 TAO:0000548 MFO:0002100 ZFA:0000548 muscular system BioportalImporter v.1.2 BTO:0001485 TADS:0000324 EV:0100146 WBbt:0005737 FBbt:00005069 The bodily system that is composed of skeletal, smooth, and cardiac muscle tissue and functions in movement of the body or of materials through the body, maintenance of posture, and heat production.[accessedResource: BTO:0001485][accessDate: 2009-11-30] muscule system muscle system[accessedResource: MAT:0000025][accessDate: 2009-11-30] James Malone HepG2 James Malone BioportalImporter v.1.2 Leydig cell testis - leydig cell interstitial cell[accessedResource: CL:0000178][accessDate: 2009-11-30] CL:0000178 rosette leaf James Malone PO:0000014 James Malone Invasive Lobular Adenocarcinoma[accessedResource: NCIt:C7950][accessDate: 2009-11-30] Invasive Lobular Carcinoma, Classic Type[accessedResource: NCIt:C7950][accessDate: 2009-11-30] Invasive Lobular Breast Carcinoma[accessedResource: NCIt:C7950][accessDate: 2009-11-30] An infiltrating lobular adenocarcinoma. The malignant cells lack cohesion and are arranged individually or in a linear manner (Indian files), or as narrow trabeculae within the stroma. The malignant cells are usually smaller than those of ductal carcinoma, are less pleomorphic, and have fewer mitotic figures.[accessedResource: NCIt:C7950][accessDate: 2009-11-30] Invasive Lobular Carcinoma of Breast[accessedResource: NCIt:C7950][accessDate: 2009-11-30] Infiltrating Lobular Breast Carcinoma[accessedResource: NCIt:C7950][accessDate: 2009-11-30] Classic Invasive Lobular Carcinoma[accessedResource: NCIt:C7950][accessDate: 2009-11-30] BioportalImporter v.1.2 Invasive Lobular Carcinoma of the Breast[accessedResource: NCIt:C7950][accessDate: 2009-11-30] infiltrating lobular carcinoma Infiltrating Lobular Carcinoma of Breast[accessedResource: NCIt:C7950][accessDate: 2009-11-30] Infiltrating Lobular Adenocarcinoma[accessedResource: NCIt:C7950][accessDate: 2009-11-30] invasive lobular carcinoma DOID:3460 Infiltrating Lobular Carcinoma of the Breast[accessedResource: NCIt:C7950][accessDate: 2009-11-30] NCIt:C7950 XAO:0000128 TADS:0000172 MAT:0000051 James Malone EV:0100070 BioportalImporter v.1.2 Organ with organ cavity which is continuous proximally with the esophagus and distally with the small intestine. Examples: There is only one stomach.[accessedResource: FMAID:7148][accessDate: 2009-11-30] TGMA:0001041 stomach A dilatation of the alimentary canal of a vertebrate communicating anteriorly with the esophagus and posteriorly with the duodenum.[accessedResource: BTO:0001307][accessDate: 2009-11-30] MA:00000353 BTO:0001307 EMAPA:17021 A flask-shaped posterior region, which retains the blood meal, and which in culicines is capable of much distension.[accessedResource: TGMA:0001041][accessDate: 2009-11-30] MFO:0003120 EHDAA:2993 SAEL:102 FMAID:7148 AAO:0000579 BY5251 James Malone GeneRIF:12663624 GeneRIF:12004163 GeneRIF:12021142 GeneRIF:12187923 GeneRIF:14563018 GeneRIF:12351486 Diabetes mellitus characterized by insulin deficiency, sudden onset, severe hyperglycemia, rapid progression to ketoacidosis, and death unless treated with insulin. The disease may occur at any age, but is most common in childhood or adolescence. [Source: NCI Thesaurus C2986] GeneRIF:15928253 GeneRIF:11916169 Juvenile Diabetes[accessedResource: NCIt:C2986][accessDate: 2009-11-30] Insulin Dependent Diabetes Mellitus[accessedResource: NCIt:C2986][accessDate: 2009-11-30] GeneRIF:12479587 GeneRIF:11286636 GeneRIF:12107733 GeneRIF:12185534 GeneRIF:15208781 GeneRIF:12189440 GeneRIF:15483661 GeneRIF:12221281 Insulin Dependent Diabetes[accessedResource: NCIt:C2986][accessDate: 2009-11-30] GeneRIF:12200073 GeneRIF:11914751 GeneRIF:11975985 GeneRIF:14614560 GeneRIF:12743700 GeneRIF:12457456 James Malone ICD9:250.93 GeneRIF:12039523 DOID:9744 GeneRIF:12083814 GeneRIF:12153746 GeneRIF:15189740 GeneRIF:12622777 GeneRIF:14557453 NCIt:C2986 GeneRIF:16054858 SNOMEDCT:46635009 GeneRIF:12878786 ICD9:250.91 GeneRIF:12021143 type I diabetes mellitus GeneRIF:14583186 GeneRIF:12874455 GeneRIF:11981430 Type 1 Diabetes Mellitus[accessedResource: NCIt:C2986][accessDate: 2009-11-30] Type I Diabetes[accessedResource: NCIt:C2986][accessDate: 2009-11-30] GeneRIF:12187924 GeneRIF:12351483 GeneRIF:12021138 GeneRIF:14633852 GeneRIF:11916171 GeneRIF:15950078 GeneRIF:12381897 GeneRIF:12118252 GeneRIF:11845233 GeneRIF:12788886 GeneRIF:15786423 GeneRIF:12951629 GeneRIF:12086959 BioportalImporter v.1.2 Type 1 Diabetes[accessedResource: NCIt:C2986][accessDate: 2009-11-30] GeneRIF:11466400 GeneRIF:11943852 GeneRIF:12819903 GeneRIF:11841494 GeneRIF:14962949 James Malone BioportalImporter v.1.2 Vanadium http://www.ebi.ac.uk/efo/EFO_0001635 CHEBI:27698 A vanadium group element that has formula V.[accessedResource: CHEBI:27698][accessDate: 2009-11-30] James Malone Ele Holloway OE21 Tomasz Adamusiak BioportalImporter v.1.2 Jie Zheng A unit of molarity which is equal to one thousandth of a molar or 10^[-3] M.[accessedResource: UO:0000063][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001806 James Malone mM[accessedResource: UO:0000063][accessDate: 2009-11-30] MO_509 millimolar A millimolar is a unit of molarity which is equal to one thousandth of a molar or 10^-3 M. observation study James Malone The act of regarding attentively and studying facts and occurrences, gathering data through analyzing, measuring, and drawing conclusions CHEBI:2365 http://www.ebi.ac.uk/efo/EFO_0001464 BioportalImporter v.1.2 An abscisic acid that has formula C15H20O4.[accessedResource: CHEBI:2365][accessDate: 2009-11-30] (2Z,4E)-5-[(1S)-1-hydroxy-2,6,6-trimethyl-4-oxocyclohex-2-en-1-yl]-3-methylpenta-2,4-dienoic acid[accessedResource: CHEBI:2365][accessDate: 2009-11-30] James Malone (+)-abscisic acid James Malone Senile hyperkeratosis[accessedResource: DOID:8866][accessDate: 2009-11-30] actinic keratosis Ele Holloway DOID:8866 Actinic keratosis (disorder)[accessedResource: DOID:8866][accessDate: 2009-11-30] BioportalImporter v.1.2 Actinic (Solar) Keratosis[accessedResource: DOID:8866][accessDate: 2009-11-30] SK - Solar keratosis[accessedResource: DOID:8866][accessDate: 2009-11-30] Solar keratosis[accessedResource: DOID:8866][accessDate: 2009-11-30] Actinic keratosis (morphologic abnormality)[accessedResource: DOID:8866][accessDate: 2009-11-30] A mass unit which is equal to 10^[-15] g.[accessedResource: UO:0000026][accessDate: 2009-11-30] UO:0000026 fg[accessedResource: UO:0000026][accessDate: 2009-11-30] BioportalImporter v.1.2 http://www.ebi.ac.uk/efo/EFO_0001709 femtogram James Malone A microgram is a mass unit which is equal to 1 gram x 10^-15 true quality A specifically dependent continuant [snap:SpecificallyDependentContinuant] that is exhibited if it inheres in an entity or entities at all (a categorical property). http://www.ebi.ac.uk/efo/EFO_0001436 James Malone A quality is an entity that describes some aspect which is intrinsic to that particular object and is dependent on or more material entities in which it inheres in or is borne by. Example the color of a tomato, the ambient temperature of air, the circumference of a waist, the shape of a nose, the mass of a piece of gold, the weight of a chimpanzee An agent which overcomes insulin resistance by activation of the peroxisome proliferator activated receptor gamma (PPAR-gamma).[accessedResource: CHEBI:50864][accessDate: 2009-11-30] CHEBI:50864 James Malone BioportalImporter v.1.2 insulin-sensitizing drug http://www.ebi.ac.uk/efo/EFO_0001839 HUVEC cell line GDM1 James Malone Ele Holloway epigallocatechin gallate BT483 James Malone neurointermediate lobe James Malone Ele Holloway James Malone Ele Holloway SNU16 HCT15 James Malone Ele Holloway stigma James Malone MAT:0000524 BioportalImporter v.1.2 BTO:0001303 The usually apical part of the pistil of a flower which receives the pollen grains and on which they germinate.[accessedResource: BTO:0001303][accessDate: 2009-11-30] PO:0009073 animal developmental tissue James Malone BioportalImporter v.1.2 TAO:0001105 FBbt:00000052 Tomasz Adamusiak http://www.ebi.ac.uk/efo/EFO_0001637 water James Malone Jie Zheng MO_380 BioportalImporter v.1.2 oxidane[accessedResource: CHEBI:15377][accessDate: 2009-11-30] An inorganic hydroxy compound that has formula H2O.[accessedResource: CHEBI:15377][accessDate: 2009-11-30] BioportalImporter v.1.2 James Malone CL:0000243 true use EFO_0000517 A non-neuronal cell of the nervous system. They not only provide physical support, but also respond to injury, regulate the ionic and chemical composition of the extracellular milieu. Form the myelin insulation of nervous pathways, guide neuronal migration during development, and exchange metabolites with neurons. Neuroglia have high-affinity transmitter uptake systems, voltage-dependent and transmitter-gated ion channels, and can release transmitters, but their role in signaling (as in many other functions) is unclear.[accessedResource: CL:0000243][accessDate: 2009-11-30] obsolete_glial cell (sensu Vertebrata) 1.9 CS57825 CS57825 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158849&type=germplasm http://www.arabidopsis.org/servlets/TairObject?id=1005158849&type=germplasm James Malone Most generally any neuron which is not motor or sensory. Interneurons may also refer to neurons whose axons remain within a particular brain region as contrasted with projection neurons which have axons projecting to other brain regions.[accessedResource: CL:0000099][accessDate: 2009-11-30] interneuron James Malone BioportalImporter v.1.2 CL:0000099 GABAergic interneuron James Malone A realizable entity [snap:RealizableEntity] that essentially causes a specific process or transformation in the object [snap:Object] in which it inheres, under specific circumstances and in conjunction with the laws of nature. A general formula for dispositions is: X (object [snap:Object] has the disposition D to (transform, initiate a process) R under conditions C. disposition http://www.ebi.ac.uk/efo/EFO_0001438 For example, the disposition of vegetables to decay when not refrigerated, the disposition of blood to coagulate, the disposition of a patient with a weakened immune system to contract disease. A disposition is an entity that essentially causes a specific process or transformation in an entity in which it inheres, under specific circumstances and in conjunction with the laws of nature. For example, the disposition of vegetables to decay when not refrigerated, the disposition of blood to coagulate, the disposition of a patient with a weakened immune system to contract disease. true disposition James Malone hemopoietic stem cell[accessedResource: CL:0000037][accessDate: 2009-11-30] hematopoietic stem cell CL:0000037 BioportalImporter v.1.2 colony forming unit hematopoietic HSC[accessedResource: CL:0000037][accessDate: 2009-11-30] A stem cell from which all cells of the lymphoid and myeloid lineages develop, including blood cells and cells of the immune system.[accessedResource: CL:0000037][accessDate: 2009-11-30] CS57886 CS57886 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158910&type=germplasm http://www.arabidopsis.org/servlets/TairObject?id=1005158910&type=germplasm James Malone Tomasz Adamusiak species design MO_675 James Malone FBbt:00005629 embryonic gastric caecum James Malone microRNA profiling by array ArrayExpress production team An assay in which a microRNA array is used to analyse the microRNA component of the transcriptome. L-gamma-glutamyl-L-cysteinylglycine[accessedResource: CHEBI:16856][accessDate: 2009-11-30] NIFSTD:nlx_mol_20090201 glutathione http://www.ebi.ac.uk/efo/EFO_0001547 A tripeptide compound consisting of glutamic acid attached via its side chain to the N-terminus of cysteinylglycine.[accessedResource: CHEBI:16856][accessDate: 2009-11-30] Tomasz Adamusiak BioportalImporter v.1.2 FBbt:00001056 embryonic central nervous system James Malone DOID:3907 SNOMEDCT:254634000 Squamous Cell Carcinoma of the Lung[accessedResource: NCIt:C3493][accessDate: 2009-11-30] Squamous Cell Carcinoma of Lung[accessedResource: NCIt:C3493][accessDate: 2009-11-30] GeneRIF:12107845 A carcinoma arising from malignant squamous bronchial epithelial cells and characterized by the presence of keratinization and/or intercellular bridges. Cigarette smoking and arsenic exposure are strongly associated with squamous cell lung carcinoma. [Source: NCI Thesaurus C3493] James Malone GeneRIF:15889794 Epidermoid Cell Carcinoma of Lung[accessedResource: NCIt:C3493][accessDate: 2009-11-30] Squamous cell carcinoma of lung (disorder)[accessedResource: DOID:3907][accessDate: 2009-11-30] NCIt:C3493 Epidermoid Cell Carcinoma of the Lung[accessedResource: NCIt:C3493][accessDate: 2009-11-30] squamous cell lung carcinoma Epidermoid Cell Lung Carcinoma[accessedResource: NCIt:C3493][accessDate: 2009-11-30] BioportalImporter v.1.2 James Malone BioportalImporter v.1.2 arrayer An arrayer is an instrument which deposits biological material onto a substrate in a defined pattern.[accessedResource: OBI_0400105][accessDate: 2009-11-30] OBI_0400105 MO_697 NCIH1563 James Malone Ele Holloway submandibular gland Submaxillary Gland[accessedResource: NCIt:C12233][accessDate: 2009-11-30] BioportalImporter v.1.2 BTO:0001316 One of the three chief, paired salivary glands, predominantly serous, lying partly above and partly below the posterior half of the base of the mandible.[accessedResource: BTO:0001316][accessDate: 2009-11-30] One of two salivary glands in the neck, located in the space bound by the two bellies of the digastric muscle and the angle of the mandible. It discharges through the submandibular duct. (MeSH) [Source: NCI Thesaurus C12233] James Malone NCIt:C12233 adrenal neuroblast neuroblast (sensu Vertebrata) James Malone CL:0000337 MO_520 funder Tomasz Adamusiak Tomasz Adamusiak Jie Zheng B10.NOD_H2g7 https://www.cbil.upenn.edu/RADQuerier/php/sampleInfo.php?assay_id=8649&&study_id=2424 C57Bl/10 derived non-diabetic mouse strain expressing H2g7. true MO_548 Jie Zheng James Malone Tomasz Adamusiak A cell type is a distinct morphological or functional form of cell. Examples are epithelial, glial etc. epithelial, glial. cell type Tomasz Adamusiak Jie Zheng large adipocyte James Malone Ele Holloway Daudi PATO:0000047 BioportalImporter v.1.2 James Malone MO_680 Jie Zheng NCIt:C28421 Term applied to any organism able to undergo sexual reproduction in order to differentiate the individuals or types involved. Sexual reproduction is defined as the ability to exchange genetic material with the potential of recombinant progeny. An organismal quality inhering in a bearer by virtue of the bearer's ability to undergo sexual reproduction in order to differentiate the individuals or types involved.[accessedResource: PATO:0000047][accessDate: 2009-11-30] Tomasz Adamusiak sex The assemblage of physical properties or qualities by which male is distinguished from female; the physical difference between male and female; the distinguishing peculiarity of male or female.[accessedResource: NCIt:C28421][accessDate: 2009-11-30] James Malone Tuberculoid leprosy [type T][accessedResource: DOID:1025][accessDate: 2009-11-30] BioportalImporter v.1.2 Type T leprosy[accessedResource: DOID:1025][accessDate: 2009-11-30] SNOMEDCT:70143003 ICD9:030.1 tuberculoid leprosy MSH:D015441 A principal or polar form of LEPROSY in which the skin lesions are few and are sharply demarcated. Peripheral nerve involvement is pronounced and may be severe. Unlike lepromatous leprosy (LEPROSY, LEPROMATOUS), the lepromin test is positive. Tuberculoid leprosy is rarely a source of infection to others.[accessedResource: MSH:D015441][accessDate: 2009-11-30] DOID:1025 Smooth leprosy[accessedResource: DOID:1025][accessDate: 2009-11-30] MDAMB231 James Malone James Malone blastula 1k-cell ZFS:0000011 BioportalImporter v.1.2 FMAID:7158 EMAPA:16727 AAO:0000541 XAO:0000117 MA:0000327 TADS:0000043 TAO:0000272 James Malone .[accessedResource: FBbt:00005024][accessDate: 2009-11-30] EHDAA:2203 MFO:0003160 respiratory system SAEL:90 EV:0100036 Functional system which consists of structures involved in respiration.[accessedResource: FMAID:7158][accessDate: 2009-11-30] BTO:0000203 MAT:0000030 Apparatus respiratorius[accessedResource: FMAID:7158][accessDate: 2009-11-30] respiratory system structure FBbt:00005024 A system of organs subserving the function of respiration and in air-breathing vertebrates consisting typically of the lungs and their nervous and circulatory supply and the channels by which these are continuous with the outer air.[accessedResource: BTO:0000203][accessDate: 2009-11-30] Antineoplastic agent isolated from the bark of the Pacific yew tree, Taxus brevifolia.[accessedResource: CHEBI:45863][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001622 4alpha,10beta-bis(acetyloxy)-13alpha-[(2S,3S)-3-(benzoylamino)-2-hydroxy-3-phenylpropanoyloxy]-1,7beta-dihydroxy-9-oxo-5beta,20-epoxytax-11-en-2alpha-yl benzoate[accessedResource: CHEBI:45863][accessDate: 2009-11-30] taxol James Malone BioportalImporter v.1.2 CHEBI:45863 An experiment where proteins in a sample are detected, quantified or otherwise analysed, e.g. antibody profiling using an array based technology proteomic profiling by array Tomasz Adamusiak Jie Zheng cardiovascular system endothelium MA:0000717 NIFSTD:nlx_anat_20090601 Tomasz Adamusiak Front part of the brain; involved in planning, organizing, problem solving, selective attention, personality and a variety of "higher cognitive functions" including behavior and emotions.[accessedResource: BTO:0000484][accessDate: 2009-11-30] BioportalImporter v.1.2 frontal lobe Frontal cortex[accessedResource: FMAID:61824][accessDate: 2009-11-30] Frontal lobe is the anterior-most of five lobes of the cerebral hemisphere. It is bounded by the central sulcus on its posterior border and by the longitudinal cerebral fissure on its medial border.[accessedResource: FMAID:61824][accessDate: 2009-11-30] MAT:0000505 Frontal region[accessedResource: FMAID:61824][accessDate: 2009-11-30] BTO:0000484 James Malone FMAID:61824 EV:0100167 NIFSTD:birnlex_928 fibroma James Malone NCIt:C13062 FMA:14181 BTO:0001713 The dorsal area between the base of the neck and the sacrum. [Source: NCI Thesaurus C13062] The back; especially : the entire dorsal surface of an animal.[accessedResource: BTO:0001713][accessDate: 2009-11-30] BioportalImporter v.1.2 back BioportalImporter v.1.2 Jie Zheng James Malone organization An organization is a continuant entity which can play roles, has members, and has a set of organization rules. Members of organizations are either organizations themselves or individual people. Members can bear specific organization member roles that are determined in the organization rules. The organization rules also determine how decisions are made on behalf of the organization by the organization members.[accessedResource: OBI_0000245][accessDate: 2009-11-30] MO_177 organisation http://www.ebi.ac.uk/efo/EFO_0002010 Tomasz Adamusiak http://www.cbil.upenn.edu/RAD/DGAP/php/displayStudy.php?study_id=2340&&download=1#study2340 ObOb Mouse strain with deficiency of the leptin gene (ObOb). Tomasz Adamusiak Jie Zheng GM07056 James Malone James Malone Ele Holloway BC-5 James Malone EMAPA:17950 EHDAA:7009 Organ with organ cavity which connects the renal sinus to the urinary bladder. Examples: There are only two ureters, the right and the left ureters.[accessedResource: FMAID:9704][accessDate: 2009-11-30] EV:0100097 BTO:0001409 FMAID:9704 BioportalImporter v.1.2 MA:0000378 WBbt:0005777 WBbt:0004540 MAT:0000120 XAO:0000144 ureter excretory duct cell[accessedResource: MAT:0000120][accessDate: 2009-11-30] The tube that carries urine from the kidney to the bladder.[accessedResource: BTO:0001409][accessDate: 2009-11-30] Ele Holloway Pituitary adenoma (disorder)[accessedResource: DOID:3829][accessDate: 2009-11-30] pituitary adenoma DOID:3829 BioportalImporter v.1.2 Tomasz Adamusiak Adenoma of the Pituitary Gland[accessedResource: DOID:3829][accessDate: 2009-11-30] Pituitary adenoma, no ICD-O subtype (morphologic abnormality)[accessedResource: DOID:3829][accessDate: 2009-11-30] James Malone Ele Holloway AsPC1 FBbt:00004852 EMAPA:18682 BioportalImporter v.1.2 MA:0000408 MAT:0000186 BTO:0000405 penis A male organ of copulation that in male mammals including humans usually functions as the channel by which urine leaves the body.[accessedResource: BTO:0000405][accessDate: 2009-11-30] EHDAA:9380 FMAID:9707 James Malone EV:0100107 SAEL:80 CL:0000182 BTO:0000575 James Malone BioportalImporter v.1.2 The main structural component of the liver. They are specialized epithelial cells that are organized into interconnected plates called lobules.[accessedResource: CL:0000182][accessDate: 2009-11-30] A liver cell.[accessedResource: BTO:0000575][accessDate: 2009-11-30] hepatocyte RPMI8226 James Malone Ele Holloway SNOMEDCT:254915003 clear cell renal carcinoma Renal Clear Cell Adenocarcinoma[accessedResource: NCIt:C4033][accessDate: 2009-11-30] GeneRIF:15709172 DOID:4467 Clear Cell Renal Cell Carcinoma[accessedResource: NCIt:C4033][accessDate: 2009-11-30] Grawitz Tumor[accessedResource: NCIt:C4033][accessDate: 2009-11-30] Clear cell carcinoma of kidney[accessedResource: DOID:4467][accessDate: 2009-11-30] Conventional (Clear Cell) Renal Cell Adenocarcinoma[accessedResource: NCIt:C4033][accessDate: 2009-11-30] Clear cell carcinoma of kidney (disorder)[accessedResource: DOID:4467][accessDate: 2009-11-30] A heterogeneous group of sporadic or hereditary carcinoma derived from cells of the KIDNEYS. There are several subtypes including the clear cells, the papillary, the chromophobe, the collecting duct, the spindle cells (sarcomatoid), or mixed cell-type carcinoma.[accessedResource: MSH:D002292][accessDate: 2009-11-30] Clear Cell Adenocarcinoma, Kidney[accessedResource: NCIt:C4033][accessDate: 2009-11-30] Clear Cell Carcinoma of the Kidney[accessedResource: NCIt:C4033][accessDate: 2009-11-30] GeneRIF:15062033 James Malone Kidney Clear Cell Carcinoma[accessedResource: NCIt:C4033][accessDate: 2009-11-30] Hypernephroma[accessedResource: NCIt:C4033][accessDate: 2009-11-30] A malignant epithelial neoplasm of the kidney characterized by the presence of lipid-containing clear cells within a vascular network. The tumor may metastasize to unusual sites and late metastasis is common.[accessedResource: NCIt:C4033][accessDate: 2009-11-30] BioportalImporter v.1.2 NCIt:C4033 Clear Cell Adenocarcinoma of the Kidney[accessedResource: NCIt:C4033][accessDate: 2009-11-30] MSH:D002292 Clear cell carcinoma of kidney is a renal cell carcinoma described as the most common type of renal cell carcinoma. The cancerous cells appear very pale or clear when examined under microscope. This cancer can be effectively treated with surgery if the tumor is confined to the kidney.[accessedResource: DOID:4467][accessDate: 2009-11-30] GeneRIF:14550470 Conventional (Clear cell) Renal cell Carcinoma[accessedResource: DOID:4467][accessDate: 2009-11-30] Conventional Renal cell Carcinoma[accessedResource: DOID:4467][accessDate: 2009-11-30] GeneRIF:12576453 Clear Cell Adenocarcinoma of Kidney[accessedResource: NCIt:C4033][accessDate: 2009-11-30] James Malone MAT:0000479 A placode is a tissue modifier describing the thickening of embryonic ectoderm from which a definitive structure develops. For example, the cranial placodes. placode cranial placodes An uncommon benign neoplasm arising from the bone. It is characterized by the presence of spindle-shaped or stellate chondrocytes, a lobulated growth pattern, myxoid stroma formation, and sometimes multinucleated giant cells. It has been associated with chromosomal rearrangement of 6q13 and 6q25 bands. The most common clinical symptom is mild, localized pain. [Source: NCI Thesaurus C3830] BioportalImporter v.1.2 DOID:2694 Chondromyxoid fibroma (morphologic abnormality)[accessedResource: DOID:2694][accessDate: 2009-11-30] James Malone SNOMEDCT:39553005 chondromyxoid fibroma NCIt:C3830 James Malone Ele Holloway 5-fluorouridine http://www.ebi.ac.uk/efo/EFO_0002489 CHEBI:46390 CHEBI:18248 http://www.ebi.ac.uk/efo/EFO_0002410 James Malone Ele Holloway BioportalImporter v.1.2 An iron group element that has formula Fe.[accessedResource: CHEBI:18248][accessDate: 2009-11-30] iron GM12892 WM115 James Malone Ele Holloway http://www.ebi.ac.uk/efo/EFO_0000393 A data transformation is a process which produces output data from input data[accessedResource: OBI_0200000][accessDate: 2009-11-30] A data transformation is a process which produces output data from input data - e.g. the application of a clustering protocol to microarray data or the application of a statistical testing method on a primary data set to determine a p-value. BioportalImporter v.1.2 James Malone OBI_0200000 data transformation NCIH358 James Malone Ele Holloway CS57727 CS57727 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158751&type=germplasm James Malone http://www.arabidopsis.org/servlets/TairObject?id=1005158751&type=germplasm MOLT-4 James Malone MOLT4 BioportalImporter v.1.2 2-chloro-2-difluoromethoxy-1,1,1-trifluoroethane[accessedResource: CHEBI:6015][accessDate: 2009-11-30] James Malone An organofluorine compound that has formula C3H2ClF5O.[accessedResource: CHEBI:6015][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001559 CHEBI:6015 isoflurane An instrument used to chemically synthesize oligonucleotides.[accessedResource: OBI_0400113][accessDate: 2009-11-30] oligonucleotide synthesizer James Malone BioportalImporter v.1.2 OBI_0400113 MO_930 A benign, borderline, or malignant fibroepithelial neoplasm arising from the breast and rarely the prostate gland. It may recur following resection. The recurrence rates are higher for borderline and malignant phyllodes tumors. In borderline and malignant phyllodes tumors metastases to distant anatomic sites can occur. The incidence of metastases is higher in malignant phyllodes tumors. [Source: NCI Thesaurus C2977] DOID:2608 GeneRIF:15044924 Cystosarcoma phyllodes NOS (morphologic abnormality)[accessedResource: DOID:2608][accessDate: 2009-11-30] Cystosarcoma phyllodes, NOS[accessedResource: DOID:2608][accessDate: 2009-11-30] A type of connective tissue neoplasm arising from intralobular stroma of the BREAST. It is characterized by the rapid enlargement of an asymmetric firm mobile mass. Histologically, its leaf-like stromal clefts are lined by EPITHELIAL CELLS.[accessedResource: MSH:D003557][accessDate: 2009-11-30] SNOMEDCT:189825002 Cystosarcoma phyllodes[accessedResource: DOID:2608][accessDate: 2009-11-30] NCIt:C2977 phyllodes tumor BioportalImporter v.1.2 James Malone MSH:D003557 SNOMEDCT:71232009 Phyllodes neoplasm[accessedResource: DOID:2608][accessDate: 2009-11-30] James Malone lateral geniculate nucleus Lateral geniculate body[accessedResource: FMA:62209][accessDate: 2009-11-30] MA:0000869 Lateral geniculate complex[accessedResource: FMA:62209][accessDate: 2009-11-30] BioportalImporter v.1.2 FMA:62209 GeneRIF:12823767 DOID:8986 James Malone GeneRIF:15985489 narcolepsy GeneRIF:11796186 GeneRIF:15157381 Narcolepsy NOS[accessedResource: DOID:8986][accessDate: 2009-11-30] GeneRIF:15091316 MSH:D009290 GeneRIF:15070772 GeneRIF:12535955 GeneRIF:14769912 GeneRIF:12414876 paroxysmal sleep[accessedResource: DOID:8986][accessDate: 2009-11-30] GeneRIF:12601524 Narcolepsy (disorder)[accessedResource: DOID:8986][accessDate: 2009-11-30] BioportalImporter v.1.2 GeneRIF:15453542 ICD9:347.0 A condition characterized by recurrent episodes of daytime somnolence and lapses in consciousness (microsomnias) that may be associated with automatic behaviors and AMNESIA. CATAPLEXY; SLEEP PARALYSIS, and hypnagogic HALLUCINATIONS frequently accompany narcolepsy. The pathophysiology of this disorder includes sleep-onset rapid eye movement (REM) sleep, which normally follows stage III or IV sleep. (From Neurology 1998 Feb;50(2 Suppl 1):S2-S7)[accessedResource: MSH:D009290][accessDate: 2009-11-30] HP:0008200 DOID:11202 primary hyperparathyroidism (disorder)[accessedResource: DOID:11202][accessDate: 2009-11-30] primary hyperparathyroidism Tomasz Adamusiak Ele Holloway BioportalImporter v.1.2 duplicate of EFO_0001253 1.8 true obsolete_THP1 James Malone A biological agent that causes disease or illness to its host pathogen James Malone antirheumatic drug A drug used to treat rheumatoid arthritis.[accessedResource: CHEBI:35842][accessDate: 2009-11-30] CHEBI:35842 CHEBI:35842 http://www.ebi.ac.uk/efo/EFO_0001487 James Malone BioportalImporter v.1.2 SNOMEDCT:9001003 BioportalImporter v.1.2 DOID:2649 Chondroblastoma (morphologic abnormality)[accessedResource: DOID:2649][accessDate: 2009-11-30] Chondroblastoma NOS (morphologic abnormality)[accessedResource: DOID:2649][accessDate: 2009-11-30] NCIt:C2945 A benign, lytic neoplasm usually arising from the cartilage in epiphysis and metaphysis of bone. It is a well circumscribed tumor characterized by the presence of chondroblasts, osteoclast-like giant cells, myxoid stroma formation, calcification, and mitotic activity. In aggressive cases, there is rearrangement of the 8q21 chromosome band. The tumor occurs most frequently in children and young adults.[accessedResource: NCIt:C2945][accessDate: 2009-11-30] A usually benign tumor composed of cells which arise from chondroblasts or their precursors and which tend to differentiate into cartilage cells. It occurs primarily in the epiphyses of adolescents. It is relatively rare and represents less than 2% of all primary bone tumors. The peak incidence is in the second decade of life; it is about twice as common in males as in females. (From Dorland, 27th ed; Holland et al., Cancer Medicine, 3d ed, p1846)[accessedResource: MSH:D002804][accessDate: 2009-11-30] GeneRIF:13680221 chondroblastoma James Malone SNOMEDCT:189887007 MSH:D002804 Chondroblastoma of bone[accessedResource: DOID:2649][accessDate: 2009-11-30] Juvenile rheumatoid arthritis NOS (disorder)[accessedResource: DOID:677][accessDate: 2009-11-30] Ele Holloway juvenile arthritis[accessedResource: DOID:677][accessDate: 2009-11-30] DOID:677 Juvenile rheumatoid arthritis (disorder)[accessedResource: DOID:677][accessDate: 2009-11-30] Juvenile seropositive polyarthritis[accessedResource: DOID:677][accessDate: 2009-11-30] Tomasz Adamusiak BioportalImporter v.1.2 Juvenile chronic arthritis (disorder)[accessedResource: DOID:677][accessDate: 2009-11-30] Juvenile rheumatoid a.[accessedResource: DOID:677][accessDate: 2009-11-30] Juvenile idiopathic arthritis (disorder)[accessedResource: DOID:677][accessDate: 2009-11-30] Juvenile rheumatoid arthritis, NOS[accessedResource: DOID:677][accessDate: 2009-11-30] chronic childhood arthritis Juvenile rheumatoid arthritis[accessedResource: DOID:677][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 NCIt:C2855 A neoplasm arising from the epithelium. It may be encapsulated or non-encapsulated but non-invasive. The neoplastic epithelial cells may or may not display cellular atypia or dysplasia. In the gastrointestinal tract, when dysplasia becomes severe it is sometimes called carcinoma in situ. Representative examples are pituitary gland adenoma, follicular adenoma of the thyroid gland, and adenomas (or adenomatous polyps) of the gastrointestinal tract. adenoma RAW264.7 James Malone James Malone http://www.arabidopsis.org/servlets/TairObject?id=1005158572&type=germplasm CS57548 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158572&type=germplasm CS57548 1.8 BioportalImporter v.1.2 obsolete_phyllid BTO:0000713 MAT:0000276 James Malone true A lateral outgrowth from a plant stem that is typically a flattened expanded variably shaped greenish organ, constitutes a unit of the foliage, and functions primarily in food manufacture by photosynthesis.[accessedResource: BTO:0000713][accessDate: 2009-11-30] duplication leaf of a moss or liverwort[accessedResource: MAT:0000276][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001574 2-(2-ethylhexyloxycarbonyl)benzoic acid[accessedResource: CHEBI:17243][accessDate: 2009-11-30] mono-2-ethylhexyl phthalate BioportalImporter v.1.2 A phthalate ester that has formula C16H22O4.[accessedResource: CHEBI:17243][accessDate: 2009-11-30] CHEBI:17243 Thoracic part of aorta[accessedResource: FMAID:3786][accessDate: 2009-11-30] Tomasz Adamusiak Jie Zheng BioportalImporter v.1.2 FMAID:3786 thoracic aorta EV:0100106 MAT:0000171 BioportalImporter v.1.2 James Malone seminal vesicle FBbt:00004958 BTO:0001234 Either of a pair of glandular pouches that lie one on either side of the male reproductive tract and in the human male secrete a sugar- and protein-containing fluid into the ejaculatory duct.[accessedResource: BTO:0001234][accessDate: 2009-11-30] FMAID:19386 Seminal gland[accessedResource: FMAID:19386][accessDate: 2009-11-30] James Malone Ele Holloway HT3 UO:0000046 A unit which is derived from base units.[accessedResource: UO:0000046][accessDate: 2009-11-30] A derived unit is a unit which is derived from base units. James Malone BioportalImporter v.1.2 http://www.ebi.ac.uk/efo/EFO_0001692 derived unit infant NIFSTD:birnlex_695 NIFSTD:birnlex_438 MIAA:0000402 Tomasz Adamusiak James Malone NCIt:C33223 BioportalImporter v.1.2 organ of corti BTO:0001691 James Malone Spiral Organ of Corti[accessedResource: NCIt:C33223][accessDate: 2009-11-30] The organ, resting on the basilar membrane in the cochlear duct, that contains the special sensory receptors for hearing; it consists of neuroepithelial hair cells and several types of supporting cells, including the inner and outer pillar cells, inner and outer phalangeal cells, border cells, and Hensen's cells.[accessedResource: BTO:0001691][accessDate: 2009-11-30] ChIP-seq ChIP-seq is an assay in which chromatin immunoprecipitation with high throughput sequencing to identify the cistrome of DNA-associated proteins. http://en.wikipedia.org/wiki/Chip-Sequencing Helen Parkinson DOID:5521 Squamous cell carcinoma, keratinizing (morphologic abnormality)[accessedResource: DOID:5521][accessDate: 2009-11-30] NCIt:C4105 Keratinizing epidermoid carcinoma[accessedResource: DOID:5521][accessDate: 2009-11-30] keratinizing squamous cell carcinoma SNOMEDCT:18048008 James Malone BioportalImporter v.1.2 Keratinising squamous cell carcinoma[accessedResource: DOID:5521][accessDate: 2009-11-30] Squamous cell carcinomas with morphologically prominent production of keratin. [Source: NCI Thesaurus C4105] adult EV:0300070 OntologyMappingImporter following MAT:0000403 WBIs:0000041 NIFSTD:birnlex_681 MAT:0000403 James Malone EVM:2990028 Tomasz Adamusiak XAO:1000009 NIFSTD:birnlex_228 FBdv:00005369 CAL54 James Malone Ele Holloway male genital system MA:0000396 FMAID:45664 EMAPA:17968 TADS:0000460 EV:0100101 XAO:0000155 BioportalImporter v.1.2 male reproductive system BTO:0000082 EHDAA:8136 ZFA:0000242 The reproductive system in men includes the prostate, the testes, and the penis.[accessedResource: BTO:0000082][accessDate: 2009-11-30] MAT:0000029 WBbt:0005574 James Malone NCIt:C3510 Malignant Melanoma of Skin Stage Unspecified[accessedResource: NCIt:C3510][accessDate: 2009-11-30] James Malone SNOMEDCT:188080004 ICD9:172 ICD9:172.8 GeneRIF:12011132 Skin, Melanoma[accessedResource: NCIt:C3510][accessDate: 2009-11-30] Melanoma of Skin[accessedResource: NCIt:C3510][accessDate: 2009-11-30] GeneRIF:14714570 GeneRIF:12376526 cutaneous melanoma SNOMEDCT:93655004 ICD9:172.3 GeneRIF:11841484 A primary melanoma arising from atypical melanocytes in the skin. Precursor lesions include acquired and congenital melanocytic nevi, and dysplastic nevi. Several histologic variants have been recognized, including superficial spreading melanoma, acral lentiginous melanoma, nodular melanoma, and lentigo maligna melanoma. [Source: NCI Thesaurus C3510] ICD9:172.9 DOID:8923 Melanoma of the Skin[accessedResource: NCIt:C3510][accessDate: 2009-11-30] GeneRIF:12459644 BioportalImporter v.1.2 SNOMEDCT:190105009 GeneRIF:12778069 SNOMEDCT:188082007 GeneRIF:15057044 Malignant Melanoma of Skin[accessedResource: NCIt:C3510][accessDate: 2009-11-30] GeneRIF:15751018 GeneRIF:12067203 GeneRIF:15743033 cancer of skin Malignant Cutaneous Melanoma[accessedResource: NCIt:C3510][accessDate: 2009-11-30] SKNDZ James Malone Ele Holloway Tomasz Adamusiak growth condition design MO_588 Tomasz Adamusiak BioportalImporter v.1.2 erythroid progenitor cell CL:0000038 A progenitor cell committed to the erythroid lineage.[accessedResource: CL:0000038][accessDate: 2009-11-30] antigen profiling ArrayExpress production team James Malone An assay where an antigen array is used (antigens deposited on the array) to detect, quantify or otherwise analyse antibodies in solution. James Malone IMR-32 Tomasz Adamusiak James Malone precursor B-cell T-cell neoplasm neoplasm of immature B and T cells CHEBI:34005 OPDA 12-oxophytodienoic acid James Malone Ele Holloway http://www.ebi.ac.uk/efo/EFO_0002482 (9R,13R)-12-oxo-phytodienoic acid obsolete_individual genetic characteristic The genotype of the individual organism from which the biomaterial was derived. Individual genetic characteristics include polymorphisms, disease alleles, and haplotypes. true SW1463 James Malone Ele Holloway James Malone Ele Holloway KLE James Malone BioportalImporter v.1.2 CL:0000312 BTO:0000667 keratinocyte Skin cell, of the keratinized layer of epidermis: its characteristic intermediate filament protein is cytokeratin.[accessedResource: BTO:0000667][accessDate: 2009-11-30] An epidermal cell which synthesizes keratin and undergoes a characteristic change as it moves upward from the basal layers of the epidermis to the cornified (horny) layer of the skin. Successive stages of differentiation of the keratinocytes forming the epidermal layers are basal cell, spinous or prickle cell, and the granular cell.[accessedResource: CL:0000312][accessDate: 2009-11-30] BioportalImporter v.1.2 insulin resistance DOID:2017 diminished effectiveness of insulin in lowering plasma glucose levels[accessedResource: MP:0005331][accessDate: 2009-11-30] MP:0005331 HP:0000855 Drug resistance to insulin (disorder)[accessedResource: DOID:2017][accessDate: 2009-11-30] Tomasz Adamusiak Ele Holloway caudate putamen BTO:0000212 James Malone BioportalImporter v.1.2 A centrally-located portion of the brain affected by Huntington's Disease. The putamen is structurally similar to the caudate nucleus together with which it composes what is termed the striatum.[accessedResource: BTO:0000212][accessDate: 2009-11-30] dendritic cell-derived osteoclast Strain or line specific to yeast yeast James Malone BioportalImporter v.1.2 A quinazoline that has formula C29H26ClFN4O4S.[accessedResource: CHEBI:49603][accessDate: 2009-11-30] N-[3-chloro-4-(3-fluorobenzyloxy)phenyl]-6-[5-({[2-(methanesulfonyl)ethyl]amino}methyl)furan-2-yl]quinazolin-4-amine[accessedResource: CHEBI:49603][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001562 CHEBI:49603 lapatinib CL:0000477 follicle cell James Malone James Malone chlorpyrifos O,O-diethyl O-(3,5,6-trichloropyridin-2-yl) phosphorothioate[accessedResource: CHEBI:34631][accessDate: 2009-11-30] An organochlorine acaricide that has formula C9H11Cl3NO3PS.[accessedResource: CHEBI:34631][accessDate: 2009-11-30] BioportalImporter v.1.2 CHEBI:34631 http://www.ebi.ac.uk/efo/EFO_0001504 GeneRIF:15004750 GeneRIF:15459013 GeneRIF:16053025 GeneRIF:12047365 GeneRIF:15735647 MSH:D012507 sarcoidosis GeneRIF:12180727 NCIt:C34995 GeneRIF:15713215 GeneRIF:15976369 DOID:11335 GeneRIF:14601651 GeneRIF:12413001 GeneRIF:15750046 SNOMEDCT:31541009 An idiopathic systemic inflammatory granulomatous disorder comprised of epithelioid and multinucleated giant cells with little necrosis. It usually invades the lungs with fibrosis and may also involve lymph nodes, skin, liver, spleen, eyes, phalangeal bones, and parotid glands.[accessedResource: MSH:D012507][accessDate: 2009-11-30] GeneRIF:15702130 ICD9:135 GeneRIF:14597055 GeneRIF:12091241 Boeck Sarcoid, any site[accessedResource: DOID:11335][accessDate: 2009-11-30] Sarcoidosis (disorder)[accessedResource: DOID:11335][accessDate: 2009-11-30] GeneRIF:12068984 GeneRIF:12039524 BioportalImporter v.1.2 GeneRIF:16053028 GeneRIF:15332393 GeneRIF:15942292 James Malone GeneRIF:15083893 GeneRIF:15019280 GeneRIF:14551164 GeneRIF:14508706 GeneRIF:16236915 GeneRIF:12366781 thigh 1: The proximal segment of the vertebrate hind limb extending from the hip to the knee and supported by a single large bone. n2: The segment of the leg immediately distal to the thigh in a bird or in a quadruped in which the true thigh is obscured.[accessedResource: BTO:0001376][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 BTO:0001376 A drug which lowers the blood glucose level.[accessedResource: CHEBI:35526][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 CHEBI:35526 http://www.ebi.ac.uk/efo/EFO_0001844 hypoglycemic drug KPL1 James Malone Ele Holloway mesothelial cell James Malone CL:0000077 B cell derived cell line James Malone Ele Holloway SW900 GM11992 James Malone RNA-seq James Malone An assay in which sequencing technology (e.g. Solexa/454) is used to generate RNA sequence, analyse the transcibed regions of the genome, and or to quantitate transcript abundance transcription profiling by high throughput sequencing ArrayExpress Team mesoderm FMA:69072 James Malone An assay with input protein protein assay James Malone CHEBI:15929 BioportalImporter v.1.2 A jasmonate ester that has formula C13H20O3.[accessedResource: CHEBI:15929][accessDate: 2009-11-30] Ele Holloway methyl (-)-jasmonate methyl {(1R,2R)-3-oxo-2-[(2Z)-pent-2-en-1-yl]cyclopentyl}acetate[accessedResource: CHEBI:15929][accessDate: 2009-11-30] James Malone http://www.ebi.ac.uk/efo/EFO_0002413 James Malone HMEC S1 microliter A volume unit which is equal to one millionth of a liter or 10^[-6] L.[accessedResource: UO:0000101][accessDate: 2009-11-30] Jie Zheng http://www.ebi.ac.uk/efo/EFO_0001717 Tomasz Adamusiak A microliter is a volume unit which is equal to one millionth of a liter or 10^-6 L. MO_926 ul[accessedResource: UO:0000101][accessDate: 2009-11-30] James Malone µl BioportalImporter v.1.2 erythroblast A nucleated precursor of an erythrocyte.[accessedResource: CL:0000765][accessDate: 2009-11-30] normoblast[accessedResource: CL:0000765][accessDate: 2009-11-30] CL:0000765 James Malone BioportalImporter v.1.2 James Malone Ele Holloway CORL23 BioportalImporter v.1.2 bucladesine http://www.ebi.ac.uk/efo/EFO_0001495 CHEBI:50095 6-N-butanoyl-2'-O-butanoyladenosine 3',5'-(hydrogen phosphate)[accessedResource: CHEBI:50095][accessDate: 2009-11-30] GeneRIF:14753493 Subarachnoid haemorrhage[accessedResource: DOID:11236][accessDate: 2009-11-30] SNOMEDCT:195162008 BioportalImporter v.1.2 SNOMEDCT:21454007 GeneRIF:15331787 subarachnoid hemorrhage Subarachnoid hemorrhage NOS (disorder)[accessedResource: DOID:11236][accessDate: 2009-11-30] ICD9:430 GeneRIF:15297630 GeneRIF:12677022 GeneRIF:15665056 GeneRIF:15091109 GeneRIF:15947258 MSH:D013345 GeneRIF:15947264 DOID:11236 Bleeding into the intracranial or spinal SUBARACHNOID SPACE, most resulting from INTRACRANIAL ANEURYSM rupture. It can occur after traumatic injuries (SUBARACHNOID HEMORRHAGE, TRAUMATIC). Clinical features include HEADACHE; NAUSEA; VOMITING, nuchal rigidity, variable neurological deficits and reduced mental status.[accessedResource: MSH:D013345][accessDate: 2009-11-30] Subarachnoid hemorrhage (disorder)[accessedResource: DOID:11236][accessDate: 2009-11-30] GeneRIF:15381648 James Malone MSH:D011470 GeneRIF:12111704 BPH[accessedResource: NCIt:C2897][accessDate: 2009-11-30] Benign Hyperplasia of Prostate[accessedResource: NCIt:C2897][accessDate: 2009-11-30] GeneRIF:12595443 GeneRIF:15129425 benign prostatic hyperplasia, NOS[accessedResource: DOID:11131][accessDate: 2009-11-30] James Malone NCIt:C2897 GeneRIF:14678983 Prostatic hyper -benign[accessedResource: DOID:11131][accessDate: 2009-11-30] BioportalImporter v.1.2 GeneRIF:12530058 GeneRIF:15314639 SNOMEDCT:367483003 GeneRIF:15599946 ICD9:600.0 benign hypertrophy of prostate NOS[accessedResource: DOID:11131][accessDate: 2009-11-30] GeneRIF:15515049 Increase in constituent cells in the PROSTATE, leading to enlargement of the organ (hypertrophy) and adverse impact on the lower urinary tract function. This can be caused by increased rate of cell proliferation, reduced rate of cell death, or both.[accessedResource: MSH:D011470][accessDate: 2009-11-30] GeneRIF:15999119 GeneRIF:15178433 GeneRIF:16114059 GeneRIF:12552318 GeneRIF:15492805 GeneRIF:12111701 SNOMEDCT:266569009 GeneRIF:15611997 GeneRIF:12142541 benign prostatic hyperplasia (disorder)[accessedResource: DOID:11131][accessDate: 2009-11-30] A non-cancerous nodular enlargement of the prostate gland. It is characterized by the presence of epithelial cell nodules, and stromal nodules containing fibrous and smooth muscle elements. It is the most common urologic disorder in men, causing blockage of urine flow.[accessedResource: NCIt:C2897][accessDate: 2009-11-30] GeneRIF:14604900 GeneRIF:12399530 Benign Hyperplasia of the Prostate[accessedResource: NCIt:C2897][accessDate: 2009-11-30] Benign Prostate Hyperplasia[accessedResource: NCIt:C2897][accessDate: 2009-11-30] GeneRIF:12771801 GeneRIF:11550212 Hypertrophy (benign) of prostate[accessedResource: DOID:11131][accessDate: 2009-11-30] Enlarged prostate - benign[accessedResource: DOID:11131][accessDate: 2009-11-30] benign prostatic hyperplasia GeneRIF:15678497 GeneRIF:12673556 GeneRIF:15621731 GeneRIF:15083213 DOID:11131 benign prostatic hypertrophy[accessedResource: DOID:11131][accessDate: 2009-11-30] GeneRIF:15136785 GeneRIF:16018939 CHEBI:6775 BioportalImporter v.1.2 An aromatic amine that has formula C7H7NO3.[accessedResource: CHEBI:6775][accessDate: 2009-11-30] mesalamine http://www.ebi.ac.uk/efo/EFO_0001569 5-amino-2-hydroxybenzoic acid[accessedResource: CHEBI:6775][accessDate: 2009-11-30] bis(hydridooxygen)(O--O)[accessedResource: CHEBI:16240][accessDate: 2009-11-30] An inorganic peroxide that has formula H2O2.[accessedResource: CHEBI:16240][accessDate: 2009-11-30] CHEBI:16240 BioportalImporter v.1.2 dioxidane[accessedResource: CHEBI:16240][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001553 hydrogen peroxide dihydrogen peroxide[accessedResource: CHEBI:16240][accessDate: 2009-11-30] CHEBI:46024 trichostatin A http://www.ebi.ac.uk/efo/EFO_0001630 James Malone BioportalImporter v.1.2 A trichostatin that has formula C17H22N2O3.[accessedResource: CHEBI:46024][accessDate: 2009-11-30] (2E,4E,6R)-7-[4-(dimethylamino)phenyl]-N-hydroxy-4,6-dimethyl-7-oxohepta-2,4-dienamide[accessedResource: CHEBI:46024][accessDate: 2009-11-30] feature extraction The process of obtaining quantifiable values from the scanned image of the array. Exact synonyms: image analysis, image quantification MO_928 Tomasz Adamusiak Jie Zheng James Malone GeneRIF:15579033 MSH:D002292 papillary renal cell carcinoma Chromophil Renal Cell Carcinoma[accessedResource: NCIt:C6975][accessDate: 2009-11-30] NCIt:C6975 A heterogeneous group of sporadic or hereditary carcinoma derived from cells of the KIDNEYS. There are several subtypes including the clear cells, the papillary, the chromophobe, the collecting duct, the spindle cells (sarcomatoid), or mixed cell-type carcinoma.[accessedResource: MSH:D002292][accessDate: 2009-11-30] BioportalImporter v.1.2 DOID:4465 Also known as chromophil carcinoma, it represents a minority of renal cell carcinomas. It can be hereditary or sporadic. The sporadic papillary renal cell carcinoma is characterized by trisomy of chromosomes 7, 16, and 17, and loss of chromosome Y. The peak incidence is in the sixth and seven decades. It is classified as type 1 or 2, based on the cytoplasmic volume and the thickness of the lining neoplastic cells. The prognosis is more favorable than for conventional (clear cell) renal cell carcinoma. -- 2003[accessedResource: NCIt:C6975][accessDate: 2009-11-30] Chromophil Carcinoma of the Kidney[accessedResource: NCIt:C6975][accessDate: 2009-11-30] Papillary renal cell carcinoma is a renal cell carcinoma characterized as the second most common type of renal cell carcinoma. The cancerous cells form some projections in a finger shape, called papillae, in the tumor. This type of cancer is more common among African Americans and has a good prognosis if treated with surgery in its early stages.[accessedResource: DOID:4465][accessDate: 2009-11-30] GeneRIF:15502805 Chromophil Carcinoma of kidney[accessedResource: DOID:4465][accessDate: 2009-11-30] Papillary (Chromophil) Renal Cell Carcinoma[accessedResource: NCIt:C6975][accessDate: 2009-11-30] James Malone GeneRIF:15073597 James Malone http://sig.biostr.washington.edu/fma3.0#Retroperitoneal_space The retroperitoneum (or extraperitoneum) is the anatomical space in the abdominal cavity behind (retro) the peritoneum. [wikipedia: http://en.wikipedia.org/wiki/Retroperitoneum] retroperitoneum space retroperitoneum A straight-chain saturated fatty acid that has formula C16H32O2.[accessedResource: CHEBI:15756][accessDate: 2009-11-30] palmitic acid[accessedResource: CHEBI:15756][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001552 CHEBI:15756 Hexadecanoic acid BioportalImporter v.1.2 GeneRIF:12711118 BioportalImporter v.1.2 large cell neuroendocrine carcinoma SNOMEDCT:128628002 NCIt:C6875 A usually aggressive carcinoma composed of large malignant cells which display neuroendocrine characteristics. It is characterized by the presence of high mitotic activity and necrotic changes. The vast majority of cases are positive for neuron-specific enolase. Representative examples include lung, breast, cervical, and thymic neuroendocrine carcinomas. [Source: NCI Thesaurus C6875] James Malone DOID:5721 Large cell neuroendocrine carcinoma (morphologic abnormality)[accessedResource: DOID:5721][accessDate: 2009-11-30] GeneRIF:12605092 CHEBI:16919 http://www.ebi.ac.uk/efo/EFO_0001514 A glycine derivative that has formula C4H9N3O2.[accessedResource: CHEBI:16919][accessDate: 2009-11-30] N-[amino(imino)methyl]-N-methylglycine[accessedResource: CHEBI:16919][accessDate: 2009-11-30] creatine BioportalImporter v.1.2 NCIt:C14172 benign Tomasz Adamusiak Jie Zheng James Malone CS57923 http://www.arabidopsis.org/servlets/TairObject?id=1005164919&type=germplasm CS57923 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005164919&type=germplasm James Malone R18 Theiler stage 28 Tomasz Adamusiak Jie Zheng birnlex_7083 Tomasz Adamusiak A length unit which is equal to the length of the path traveled by light in vacuum during a time interval of 1/299 792 458 of a second.[accessedResource: UO:0000008][accessDate: 2009-11-30] A meter is a length unit which is equal to the length of the path traveled by light in vacuum during a time interval of 1/299 792 458 of a second. Jie Zheng James Malone BioportalImporter v.1.2 MO_367 meter m[accessedResource: UO:0000008][accessDate: 2009-11-30] metre http://www.ebi.ac.uk/efo/EFO_0001685 PO:0000256 James Malone root hair A filamentous extension of an epidermal cell near the tip of a rootlet that functions in absorption of water and minerals.nSpecialized unicellular trichome found in roots.[accessedResource: BTO:0001804][accessDate: 2009-11-30] BTO:0001804 BioportalImporter v.1.2 MAT:0000352 birn_anat:nlx_anat_20090307 FMAID:77387 Tomasz Adamusiak nucleus accumbens shell James Malone CS57655 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158679&type=germplasm CS57655 http://www.arabidopsis.org/servlets/TairObject?id=1005158679&type=germplasm lisinopril James Malone http://www.ebi.ac.uk/efo/EFO_0001566 BioportalImporter v.1.2 A dipeptide that has formula C21H31N3O5.[accessedResource: CHEBI:43755][accessDate: 2009-11-30] CHEBI:43755 N(2)-[(1S)-1-carboxy-3-phenylpropyl]-L-lysyl-L-proline[accessedResource: CHEBI:43755][accessDate: 2009-11-30] ArrayExpress production team genotyping An assay in which variation in the genome is analysed James Malone crystal cell FBbt:00001690 James Malone James Malone Ele Holloway DMS153 1.8 Duplicate use EFO_0001260 true obsolete_WI38 James Malone Ele Holloway Malignant Epidermoid Cell Neoplasm[accessedResource: NCIt:C2929][accessDate: 2009-11-30] GeneRIF:12452003 GeneRIF:15001836 GeneRIF:12168821 GeneRIF:15363037 GeneRIF:15920558 GeneRIF:14555508 GeneRIF:12860293 GeneRIF:14985402 GeneRIF:15180941 epidermoid carcinoma[accessedResource: NCIt:C2929][accessDate: 2009-11-30] GeneRIF:15830715 GeneRIF:15811118 GeneRIF:12190814 Squamous Cell Cancer[accessedResource: NCIt:C2929][accessDate: 2009-11-30] GeneRIF:13679863 GeneRIF:12413951 GeneRIF:14961580 GeneRIF:12722480 GeneRIF:11875739 GeneRIF:14760079 GeneRIF:15252855 GeneRIF:12926130 GeneRIF:14707456 GeneRIF:14734465 GeneRIF:15754018 GeneRIF:16201750 GeneRIF:14676802 GeneRIF:15568401 GeneRIF:15740587 GeneRIF:15579456 GeneRIF:14871981 GeneRIF:15756447 GeneRIF:14708636 GeneRIF:15870689 Squamous Carcinoma[accessedResource: NCIt:C2929][accessDate: 2009-11-30] GeneRIF:12174888 GeneRIF:12115476 GeneRIF:15094779 GeneRIF:15585623 NCIt:C8999 GeneRIF:15197677 GeneRIF:15625067 GeneRIF:15878916 GeneRIF:12958179 GeneRIF:15184245 A carcinoma derived from stratified squamous epithelium. It may also occur in sites where glandular or columnar epithelium is normally present. (From Stedman, 25th ed)[accessedResource: MSH:D002294][accessDate: 2009-11-30] GeneRIF:15365571 GeneRIF:12194986 GeneRIF:15205458 GeneRIF:12632084 GeneRIF:12823440 GeneRIF:12174890 GeneRIF:15254682 GeneRIF:12668285 GeneRIF:12879021 GeneRIF:12429789 Epidermoid Cell Cancer[accessedResource: NCIt:C2929][accessDate: 2009-11-30] GeneRIF:15170282 GeneRIF:12112307 GeneRIF:14981906 GeneRIF:14719077 GeneRIF:15059221 GeneRIF:15609307 SNOMEDCT:402815007 GeneRIF:12169394 GeneRIF:15551738 GeneRIF:11779227 GeneRIF:11788901 GeneRIF:12447480 GeneRIF:15184269 GeneRIF:12115490 GeneRIF:15767556 GeneRIF:11959846 GeneRIF:15200479 GeneRIF:12579289 GeneRIF:16024014 James Malone GeneRIF:12787042 GeneRIF:15375751 GeneRIF:15832405 GeneRIF:14981901 GeneRIF:12579497 GeneRIF:12474056 GeneRIF:12408753 GeneRIF:14607337 GeneRIF:16327980 GeneRIF:12748469 GeneRIF:16091114 GeneRIF:12700631 BioportalImporter v.1.2 SNOMEDCT:28899001 GeneRIF:12824922 GeneRIF:15073598 GeneRIF:15567470 GeneRIF:12878090 GeneRIF:12929940 GeneRIF:16142392 GeneRIF:15817070 GeneRIF:12029498 GeneRIF:11956617 GeneRIF:15492752 Squamous cell carcinoma (morphologic abnormality)[accessedResource: DOID:1749][accessDate: 2009-11-30] GeneRIF:12841867 GeneRIF:12372346 GeneRIF:12676577 Malignant Epidermoid Cell Tumor[accessedResource: NCIt:C2929][accessDate: 2009-11-30] GeneRIF:14767526 GeneRIF:15033492 Malignant Squamous Cell Neoplasm[accessedResource: NCIt:C2929][accessDate: 2009-11-30] GeneRIF:15331608 GeneRIF:15930346 MSH:D002294 GeneRIF:16035618 GeneRIF:14633701 GeneRIF:15173661 GeneRIF:12607604 GeneRIF:12269988 GeneRIF:15161058 GeneRIF:12969350 Squamous cell carcinoma (disorder)[accessedResource: DOID:1749][accessDate: 2009-11-30] GeneRIF:14517347 GeneRIF:15329319 GeneRIF:15856454 GeneRIF:14750174 GeneRIF:11836590 GeneRIF:14604894 GeneRIF:12060398 GeneRIF:12738984 GeneRIF:11814623 GeneRIF:15254763 GeneRIF:12694349 GeneRIF:12527941 GeneRIF:12720100 GeneRIF:15061963 A carcinoma arising from squamous epithelial cells. Morphologically, it is characterized by the proliferation of atypical, often pleomorphic squamous cells. Squamous cell carcinomas are graded by the degree of cellular differentiation as well, moderately, or poorly differentiated. Well differentiated carcinomas are usually associated with keratin production and the presence of intercellular bridges between adjacent cells. Representative examples are lung squamous cell carcinoma, skin squamous cell carcinoma, and cervical squamous cell carcinoma.[accessedResource: NCIt:C2929][accessDate: 2009-11-30] Squamous cell carcinoma NOS (morphologic abnormality)[accessedResource: DOID:1749][accessDate: 2009-11-30] GeneRIF:14702179 GeneRIF:15638360 GeneRIF:11957139 squamous cell carcinoma GeneRIF:15254691 GeneRIF:15515019 GeneRIF:15201990 GeneRIF:15218300 GeneRIF:15328184 GeneRIF:15328914 GeneRIF:16211299 GeneRIF:15241500 GeneRIF:14997212 GeneRIF:16172916 GeneRIF:14676801 GeneRIF:15709189 GeneRIF:12452059 GeneRIF:11920472 GeneRIF:14993646 SNOMEDCT:189566008 GeneRIF:12565178 GeneRIF:15201986 GeneRIF:12599217 GeneRIF:12954496 GeneRIF:15526353 GeneRIF:14733907 GeneRIF:15776189 GeneRIF:15254686 GeneRIF:15390192 GeneRIF:16127291 GeneRIF:15826242 GeneRIF:15140235 GeneRIF:12851677 GeneRIF:14529662 GeneRIF:15217930 GeneRIF:15754020 GeneRIF:15774758 GeneRIF:14604896 GeneRIF:12670508 GeneRIF:12727836 NCIt:C2929 GeneRIF:11960918 Malignant Squamous Cell Tumor[accessedResource: NCIt:C2929][accessDate: 2009-11-30] GeneRIF:15388813 GeneRIF:15943786 GeneRIF:16077964 GeneRIF:12479097 GeneRIF:11887018 GeneRIF:14567988 GeneRIF:12743035 GeneRIF:12964017 GeneRIF:15662526 GeneRIF:15151617 GeneRIF:16012760 GeneRIF:16022908 GeneRIF:12841598 GeneRIF:12792768 GeneRIF:14991744 GeneRIF:12270344 Squamous Cell Epithelioma[accessedResource: NCIt:C8999][accessDate: 2009-11-30] GeneRIF:12681285 GeneRIF:11982752 DOID:1749 GeneRIF:15816843 multipotent adult progenitor cell multi fate stem cell[accessedResource: CL:0000048][accessDate: 2009-11-30] A stem cell that can give rise to mulitple lineages of cells.[accessedResource: CL:0000048][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 CL:0000048 multipotent stem cell James Malone Ele Holloway NCIH2171 prefrontal cortex BTO:0002807 BioportalImporter v.1.2 FMAID:224850 Tomasz Adamusiak The prefrontal cortex is the anterior part of the frontal lobes of the brain, lying in front of the motor and premotor areas.[accessedResource: BTO:0002807][accessDate: 2009-11-30] James Malone Prefrontal association cortex[accessedResource: FMAID:224850][accessDate: 2009-11-30] CHEBI:35718 http://www.ebi.ac.uk/efo/EFO_0001855 James Malone BioportalImporter v.1.2 antifungal drug A substance that destroys fungi by suppressing their ability to grow or reproduce. Antifungal drugs differ from industrial fungicides in that they defend against fungi present in human or animal tissues.[accessedResource: CHEBI:35718][accessDate: 2009-11-30] Canton S James Malone FBst0000001  James Malone Ele Holloway R1 MO_575 Tomasz Adamusiak sex design James Malone caudal Caudal is a geometric modifier which indicates a position towards the tail. hormone Gingiva[accessedResource: FMA:59762][accessDate: 2009-11-30] NCIt:C32677 James Malone The tissue that surrounds the necks of teeth and covers the alveolar parts of the jaws; broadly: the alveolar portion of a jaw with its enveloping soft tissues.[accessedResource: BTO:0000519][accessDate: 2009-11-30] The soft tissue surrounding the neck of individual teeth as well as covering the alveolar bone. The tissue is fibrous and continuous with the periodontal ligament and mucosal covering.[accessedResource: NCIt:C32677][accessDate: 2009-11-30] gum FMA:59762 BioportalImporter v.1.2 BTO:0000519 MAT:0000034 Arterial subtree[accessedResource: FMAID:50720][accessDate: 2009-11-30] BioportalImporter v.1.2 arterial system[accessedResource: MAT:0000034][accessDate: 2009-11-30] TAO:0000005 ZFA:0000005 EMAPA:16201 artery XAO:0000114 Arterial vessel[accessedResource: FMAID:50720][accessDate: 2009-11-30] MA:0000061 BTO:0000573 FMAID:50720 Any of the tubular branching muscular- and elastic-walled vessels that carry blood from the heart through the body.[accessedResource: BTO:0000573][accessDate: 2009-11-30] EV:0100026 Subdivision of arterial tree (organ) which consists of branching sets of tubes (arterial trunk) that form a tree; together with other arterial trees (organ part), it constitutes an arterial tree (organ). Examples: pulmonary arterial tree, right coronary arterial tree, superior mesenteric tree.[accessedResource: FMAID:50720][accessDate: 2009-11-30] Arterial tree organ part[accessedResource: FMAID:50720][accessDate: 2009-11-30] James Malone EHDAA:396 MFO:0002900 (betaR)-N(alpha)-{[6-amino-2-((1S)-3-amino-1-{[(2S)-2,3-diamino-3-oxopropyl]amino}-3-oxopropyl)-5-methylpyrimidin-4-yl]carbonyl}-beta-{2-O-[3-O-(aminocarbonyl)-alpha-D-mannopyranosyl]-alpha-L-gulopyranosyloxy}-N-[(1R,2S,3S)-5-({(1S,2R)-1-[({2-[4-({[3-(dimethylsulfonio)propyl]amino}carbonyl)-2,4'-bi-1,3-thiazol-2'-yl]ethyl}amino)carbonyl]-2-hydroxypropyl}amino)-3-hydroxy-4-methyl-5-oxopentan-2-yl]-L-histidinamide[accessedResource: CHEBI:3139][accessDate: 2009-11-30] A bleomycin that has formula C55H84N17O21S3.[accessedResource: CHEBI:3139][accessDate: 2009-11-30] bleomycin A2 http://www.ebi.ac.uk/efo/EFO_0001494 CHEBI:3139 BioportalImporter v.1.2 James Malone BTO:0001366 a primitive plant body of gametophytes that has not differentiated into roots, stems or leaves[accessedResource: MAT:0000248][accessDate: 2009-11-30] thallus MAT:0000248 BioportalImporter v.1.2 A plant body that is characteristic of thallophytes , lacks differentiation into distinct members (as stem, leaves, and roots), and does not grow from an apical point.[accessedResource: BTO:0001366][accessDate: 2009-11-30] secreted protein identification design Tomasz Adamusiak MO_694 FBbt:00005065 BioportalImporter v.1.2 SAEL:2 Connective tissue in which fat is stored and which has the cells distended by droplets of fat.[accessedResource: BTO:0001487][accessDate: 2009-11-30] fat tissue BTO:0001487 James Malone MA:0000009 EV:0100382 An organ system pertaining to fat.[accessedResource: FBbt:00005065][accessDate: 2009-11-30] lateral Lateral is a geometric modifier describing something which is of or pertaining to the side. James Malone MAT:0000488 CS57722 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158746&type=germplasm CS57722 http://www.arabidopsis.org/servlets/TairObject?id=1005158746&type=germplasm James Malone James Malone ZFS:0000024 segmentation 5-9 somites obsolete_pretreatment true http://www.ebi.ac.uk/efo/EFO_0001619 CHEBI:18422 sulphur dioxide BioportalImporter v.1.2 A sulfur oxide that has formula O2S.[accessedResource: CHEBI:18422][accessDate: 2009-11-30] sulfur dioxide[accessedResource: CHEBI:18422][accessDate: 2009-11-30] dioxidosulfur[accessedResource: CHEBI:18422][accessDate: 2009-11-30] James Malone Ele Holloway S1 somatomotor cortex primary motor cortex James Malone Ele Holloway myelodysplastic syndrome James Malone CL:0000162 James Malone BioportalImporter v.1.2 oxyntic cell[accessedResource: CL:0000162][accessDate: 2009-11-30] parietal cell James Malone Ele Holloway HPAC James Malone Ele Holloway GA10 MFO:0003460 Multicellular anatomical structure with largely bona-fide boundary that transduces some sensory stimulus to the nervous system.[accessedResource: FBbt:00005155][accessDate: 2009-11-30] sensory system WBbt:0005832 TAO:0000182 MAT:0000031 BioportalImporter v.1.2 James Malone AAO:0000555 ZFA:0000282 FBbt:00005155 MA:0002442 NCIH2195 James Malone Ele Holloway biopsy number A biopsy number is an information entity about the numerical label given to a partciular biopsy obtained. James Malone James Malone BioportalImporter v.1.2 picometre A picometer is a length unit which is equal to 1m x 10^-12. picometer http://www.ebi.ac.uk/efo/EFO_0001722 A length unit which is equal to 10^[-12] m.[accessedResource: UO:0000020][accessDate: 2009-11-30] UO:0000020 pm[accessedResource: UO:0000020][accessDate: 2009-11-30] A tricyclic antidepressant that has formula C20H23N.[accessedResource: CHEBI:2666][accessDate: 2009-11-30] CHEBI:2666 BioportalImporter v.1.2 http://www.ebi.ac.uk/efo/EFO_0001483 James Malone 3-(10,11-dihydro-5H-dibenzo[a,d][7]annulen-5-ylidene)-N,N-dimethylpropan-1-amine[accessedResource: CHEBI:2666][accessDate: 2009-11-30] amitriptyline http://www.ebi.ac.uk/efo/EFO_0001876 James Malone polar solvent CHEBI:48354 methionine hindlimb SAEL:49 Lower limb[accessedResource: FMAID:7184][accessDate: 2009-11-30] Inferior member[accessedResource: FMAID:7184][accessDate: 2009-11-30] Either of two extremities of four-footed non-primate land animals. It usually consists of a femur, tibia and fibula, tarsals, metatarsals, and toes.[accessedResource: BTO:0002345][accessDate: 2009-11-30] EMAPA:17458 James Malone XAO:0003031 BioportalImporter v.1.2 MAT:0000395 EHDAA:6094 Lower extremity[accessedResource: FMAID:7184][accessDate: 2009-11-30] BTO:0002345 FMAID:7184 MA:0000026 EV:0100015 OntologyMappingImporter following MAT:0000220 PO:0020147 apical root meristem MAT:0000220 ZEA:0015150 James Malone epithelial James Malone A cell that is usually found in a two-dimensional sheet with a free surface.[accessedResource: CL:0000066][accessDate: 2009-11-30] BioportalImporter v.1.2 Tomasz Adamusiak epithelial cell BTO:0000414 NIFSTD:sao441624014 Cell that cover the surface of the body and line its cavities.[accessedResource: BTO:0000414][accessDate: 2009-11-30] CL:0000066 http://www.ebi.ac.uk/efo/EFO_0002729 CHEBI:18185 gamma-tocopherol Tomasz Adamusiak Ele Holloway ZFS:0000022 gastrula bud James Malone ZFS:0000016 James Malone blastula 30%-epiboly James Malone subthalamic nucleus Lens-shaped structure on the inner aspect of the internal capsule. The subthalamic nucleus and pathways traversing this region are concerned with the integration of somatic motor function. (MeSH)[accessedResource: NCIt:C12454][accessDate: 2009-11-30] A biconvex mass of gray matter on the medial side of the junction of the internal capsule and the crus cerebri; its chief connections are with the globus pallidus.[accessedResource: BTO:0002252][accessDate: 2009-11-30] BioportalImporter v.1.2 BTO:0002252 NCIt:C12454 Tomasz Adamusiak Jie Zheng James Malone atmosphere The atmospheric conditions used to culture or grow an organism. MO_498 CS57677 http://www.arabidopsis.org/servlets/TairObject?id=1005158701&type=germplasm James Malone CS57677 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158695&type=germplasm A tetracycline that has formula C22H24N2O8.[accessedResource: CHEBI:50845][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001528 BioportalImporter v.1.2 (4S,4aR,5S,5aR,6R,12aS)-4-(dimethylamino)-3,5,10,12,12a-pentahydroxy-6-methyl-1,11-dioxo-1,4,4a,5,5a,6,11,12a-octahydrotetracene-2-carboxamide[accessedResource: CHEBI:50845][accessDate: 2009-11-30] doxycycline CHEBI:50845 antiphospholipid syndrome DOID:2988 primary antiphospholipid syndrome systemic lupus erythematosus systemic lupus erythematosus EV:0400043 James Malone Tomasz Adamusiak A large dorsally projecting part of the brain concerned especially with the coordination of muscles and the maintenance of bodily equilibrium, situated between the brain stem and the back of the cerebrum , and formed in humans of two lateral lobes and a median lobe.[accessedResource: BTO:0000232][accessDate: 2009-11-30] NCIt:C12445 BTO:0000232 BioportalImporter v.1.2 NIFSTD:birnlex_1489 cerebellum peduncles cerebellum Cerebellar[accessedResource: NCIt:C12445][accessDate: 2009-11-30] definitive endoderm Tomasz Adamusiak Jie Zheng BioportalImporter v.1.2 FMAID:85519 Embryonic endoderm[accessedResource: FMAID:85519][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 CL:0000218 Schwann cell A neuroglial cell of the peripheral nervous system which forms the insulating myelin sheaths of peripheral axons.[accessedResource: CL:0000218][accessDate: 2009-11-30] external control ratio Use of spiked in controls in a measurement of the spiked in external/internal ratio true HuNS1 James Malone Ele Holloway James Malone http://www.ebi.ac.uk/efo/EFO_0001852 CHEBI:35703 xenobiotic BioportalImporter v.1.2 xenobiotics[accessedResource: CHEBI:35703][accessDate: 2009-11-30] A xenobiotic (Greek, xenos "foreign"; bios "life") is a compound that is foreign to a living organism. Principal xenobiotics include: drugs, carcinogens and various compounds that have been introduced into the environment by artificial means.[accessedResource: CHEBI:35703][accessDate: 2009-11-30] James Malone Ele Holloway NCIH1573 Tomasz Adamusiak in preparation Publication in preparation before submitting to a journal. cleavage 64-cell ZFS:0000007 James Malone Tomasz Adamusiak PO:0004006 mesophyll cell James Malone BioportalImporter v.1.2 CHEBI:4031 cyclosporin A 30-ethyl-33-[(4E)-1-hydroxy-2-methylhex-4-en-1-yl]-1,4,7,10,12,15,19,25,28-nonamethyl-6,9,18,24-tetrakis(2-methylpropyl)-3,21-bis(propan-2-yl)-1,4,7,10,13,16,19,22,25,28,31-undecaazacyclotritriacontane-2,5,8,11,14,17,20,23,26,29,32-undecone[accessedResource: CHEBI:4031][accessDate: 2009-11-30] A homodetic cyclic peptide that has formula C62H111N11O12.[accessedResource: CHEBI:4031][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001506 Highly reactive chemical that introduces alkyl radicals into biologically active molecules and thereby prevents their proper functioning. It could be used as an antineoplastic agent, but it might be very toxic, with carcinogenic, mutagenic, teratogenic, and immunosuppressant actions. It could also be used as a component of poison gases.[accessedResource: CHEBI:22333][accessDate: 2009-11-30] CHEBI:22333 alkylating agent James Malone BioportalImporter v.1.2 http://www.ebi.ac.uk/efo/EFO_0001816 NCIt:C25218 Tomasz Adamusiak Procedure[accessedResource: NCIt:C25218][accessDate: 2009-11-30] SURGICAL AND MEDICAL PROCEDURES[accessedResource: NCIt:C25218][accessDate: 2009-11-30] Jie Zheng Intervention[accessedResource: NCIt:C25218][accessDate: 2009-11-30] An activity that produces an effect, or that is intended to alter the course of a disease in a patient or population. This is a general term that encompasses the medical, social, behavioral, and environmental acts that can have preventive, therapeutic, or palliative effects.[accessedResource: NCIt:C25218][accessDate: 2009-11-30] medical procedure BioportalImporter v.1.2 Intervention Strategies[accessedResource: NCIt:C25218][accessDate: 2009-11-30] Intervention or Procedure[accessedResource: NCIt:C25218][accessDate: 2009-11-30] Interventional[accessedResource: NCIt:C25218][accessDate: 2009-11-30] http://www.ebi.ac.uk/efo/EFO_0001435 James Malone information an information content entity is an entity that is generically dependent on some artifact and stands in relation of aboutness to some entity An information entity is an entity that represents information about some other entity. For example, a measurement, a clustered data set. information content entity information entity James Malone Ele Holloway BC-1 BioportalImporter v.1.2 CHEBI:29022 N-benzyladenine http://www.ebi.ac.uk/efo/EFO_0001577 N-benzyl-9H-purin-6-amine[accessedResource: CHEBI:29022][accessDate: 2009-11-30] A 6-aminopurine that has formula C12H11N5.[accessedResource: CHEBI:29022][accessDate: 2009-11-30] skin disease Skin Disorder[accessedResource: NCIt:C3371][accessDate: 2009-11-30] Cutaneous Disorder[accessedResource: NCIt:C3371][accessDate: 2009-11-30] NCIt:C3371 James Malone BioportalImporter v.1.2 Skin Diseases and Manifestations[accessedResource: NCIt:C3371][accessDate: 2009-11-30] SKIN AND SUBCUTANEOUS TISSUE DISORDERS[accessedResource: NCIt:C3371][accessDate: 2009-11-30] Any deviation from the normal structure or function of the skin or subcutaneous tissue that is manifested by a characteristic set of symptoms and signs.[accessedResource: NCIt:C3371][accessDate: 2009-11-30] lymphoid neoplasm hematological neoplasm hematological cancer blood cancer Tomasz Adamusiak James Malone A substance that reduces or suppresses inflammation.[accessedResource: CHEBI:35472][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 http://www.ebi.ac.uk/efo/EFO_0001837 anti-inflammatory drug CHEBI:35472 GLI60 James Malone GeneRIF:15793859 GeneRIF:15292938 GeneRIF:15655821 GeneRIF:11987129 GeneRIF:15946916 GeneRIF:12725330 ICD9:556.9 GeneRIF:15007304 GeneRIF:11904678 GeneRIF:12112311 GeneRIF:12139949 MSH:D003093 GeneRIF:12133438 ICD9:556 GeneRIF:12878361 GeneRIF:15188158 GeneRIF:12100519 GeneRIF:15550998 GeneRIF:11956656 GeneRIF:15288468 GeneRIF:12133437 GeneRIF:11953203 BioportalImporter v.1.2 GeneRIF:12465728 GeneRIF:15944317 GeneRIF:14627676 GeneRIF:12572877 GeneRIF:12842452 GeneRIF:16149136 GeneRIF:16015687 GeneRIF:12109441 GeneRIF:12730867 GeneRIF:14597776 GeneRIF:14611908 GeneRIF:15628695 GeneRIF:15973119 GeneRIF:15685540 GeneRIF:14731353 GeneRIF:12486609 GeneRIF:15905704 GeneRIF:12460892 GeneRIF:14617036 James Malone GeneRIF:15102868 GeneRIF:15188166 GeneRIF:15046221 Ulcerative colitis, unspecified[accessedResource: DOID:8577][accessDate: 2009-11-30] GeneRIF:12707342 GeneRIF:15052696 GeneRIF:12598727 GeneRIF:11737306 GeneRIF:12011151 GeneRIF:15146247 GeneRIF:11920497 UC - Ulcerative colitis[accessedResource: DOID:8577][accessDate: 2009-11-30] GeneRIF:15248378 ulcerative colitis GeneRIF:15935984 Inflammation of the COLON that is predominantly confined to the MUCOSA. Its major symptoms include DIARRHEA, rectal BLEEDING, the passage of MUCUS, and ABDOMINAL PAIN.[accessedResource: MSH:D003093][accessDate: 2009-11-30] GeneRIF:15284119 DOID:8577 GeneRIF:14525977 GeneRIF:12617879 Ulcerative colitis (disorder)[accessedResource: DOID:8577][accessDate: 2009-11-30] GeneRIF:12512026 GeneRIF:15755919 GeneRIF:14669348 GeneRIF:16158332 http://www.arabidopsis.org/servlets/TairObject?id=1005158639&type=germplasm CS57615 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158639&type=germplasm CS57615 James Malone BioportalImporter v.1.2 CHEBI:28135 http://www.ebi.ac.uk/efo/EFO_0001594 (22R)-2beta,3beta,14,20,22-pentahydroxy-5beta-cholest-7-en-6-one[accessedResource: CHEBI:28135][accessDate: 2009-11-30] A 14alpha-hydroxy steroid that has formula C27H44O6.[accessedResource: CHEBI:28135][accessDate: 2009-11-30] ponasterone A James Malone GM12874 GM12144 James Malone NCIt:C12669 FMAID:3734 aorta Trunk of systemic arterial tree[accessedResource: FMAID:3734][accessDate: 2009-11-30] BTO:0000135 Aortic[accessedResource: NCIt:C12669][accessDate: 2009-11-30] SAEL:6 MAT:0000035 James Malone The major arterial trunk that carries oxygenated blood from the left ventricle into the ascending aorta behind the heart, the aortic arch, through the thorax as the descending aorta and through the abdomen as the abdominal aorta; it bifurcates into the left and right common iliac arteries. [Source: NCI Thesaurus C12669] TAO:0000014 ZFA:0000014 BioportalImporter v.1.2 MA:0000476 TADS:0000154 EV:0100027 Trunk of aortic tree[accessedResource: FMAID:3734][accessDate: 2009-11-30] XAO:0003010 FBbt:00003153 The great arterial trunk that carries blood from the heart to be distributed by branch arteries through the body.[accessedResource: BTO:0000135][accessDate: 2009-11-30] Lobular organ which consist of a lactiferous duct tree and the set of lactiferous acini that are connected to duct tree. Examples: There are variable numbers of lactiferous duct trees.[accessedResource: FMAID:62088][accessDate: 2009-11-30] SAEL:64 MAT:0000073 BioportalImporter v.1.2 Lobe of mammary gland[accessedResource: FMAID:62088][accessDate: 2009-11-30] EMAPA:17759 MA:0000145 The specialized accessory gland of the skin of female mammals that secretes milk. In the human female, it is a compound tubuloalveolar gland composed of 15 to 25 lobes arranged radially about the nipple and separated by connective and adipose tissue, each lobe having its own excretory (lactiferous) duct opening on the nipple. The lobes are subdivided into lobules, with the alveolar ducts and alveoli being the secretory portion of the gland.[accessedResource: BTO:0000817][accessDate: 2009-11-30] Lobe of breast[accessedResource: FMAID:62088][accessDate: 2009-11-30] EHDAA:6522 Lactiferous gland[accessedResource: FMAID:62088][accessDate: 2009-11-30] James Malone FMAID:62088 BTO:0000817 EV:0100125 mammary gland Chlorocebus aethiops http://en.wikipedia.org/wiki/Grivet grivet African green monkey James Malone The Grivet (Chlorocebus aethiops) is an Old World monkey with long white tufts of hair along the sides of the face. http://www.ebi.ac.uk/efo/EFO_0002638 Pons Cerebelli[accessedResource: NCIt: C12511][accessDate: 2009-11-30] A broad mass of chiefly transverse nerve fibers conspicuous on the ventral surface of the brain of man and lower mammals at the anterior end of the medulla oblongata.[accessedResource: BTO:0001101][accessDate: 2009-11-30] NCIt: C12511 James Malone The middle portion of the brainstem located between the midbrain and the medulla oblongata. The fourth ventricle lies dorsal to the pons which also contains the motor trigeminal nuclei and the abducens nuclei. The cerebellum contributes a large number of afferent fibers to the pons. [Source: NCI Thesaurus C12511] NIFSTD:birnlex_733 Pons Varolii[accessedResource: NCIt: C12511][accessDate: 2009-11-30] BioportalImporter v.1.2 BTO:0001101 Tomasz Adamusiak pons cortex is ambiguous as class under brain so removed true Cortical[accessedResource: NCIt:C12443][accessDate: 2009-11-30] James Malone 1.8 NCIt:C12443 The surface layer of gray matter of the cerebrum that functions chiefly in coordination of sensory and motor information.[accessedResource: BTO:0000233][accessDate: 2009-11-30] BTO:0000233 Cerebral Cortex[accessedResource: NCIt:C12443][accessDate: 2009-11-30] BioportalImporter v.1.2 NIFSTD:birnlex_1494 Tomasz Adamusiak obsolete_cortex http://www.ebi.ac.uk/efo/EFO_0002676 ozone CHEBI:25812 birnlex_7072 Tomasz Adamusiak Jie Zheng Theiler stage 17 gastrula 80%-epiboly Tomasz Adamusiak Jie Zheng DOID:2154 Tomasz Adamusiak nephroblastoma GeneRIF:12399463 GeneRIF:12739786 GeneRIF:15325803 GeneRIF:12684695 GeneRIF:12784384 GeneRIF:15241467 GeneRIF:15077293 GeneRIF:12913926 GeneRIF:12870871 GeneRIF:12823854 GeneRIF:12509789 BioportalImporter v.1.2 GeneRIF:15313475 GeneRIF:11961170 GeneRIF:12937131 GeneRIF:11472854 GeneRIF:15031666 GeneRIF:12858434 GeneRIF:15986374 GeneRIF:15641088 GeneRIF:12913938 GeneRIF:16192646 GeneRIF:15794197 NCIt:C27206 GeneRIF:11294880 GeneRIF:12115161 GeneRIF:12571844 GeneRIF:11856352 SNOMEDCT:69896004 GeneRIF:16215318 Rheumatoid arthritis NOS[accessedResource: DOID:7148][accessDate: 2009-11-30] GeneRIF:15272075 rheumatoid arthritis GeneRIF:15464974 GeneRIF:12486608 GeneRIF:15603867 GeneRIF:12672182 GeneRIF:12193472 GeneRIF:15077296 GeneRIF:15890884 GeneRIF:12966588 GeneRIF:12847682 GeneRIF:12879272 GeneRIF:12723989 GeneRIF:14872483 GeneRIF:12115177 GeneRIF:14707104 GeneRIF:15338479 GeneRIF:12846056 GeneRIF:12060849 GeneRIF:15290725 GeneRIF:15950180 GeneRIF:15593216 GeneRIF:14558082 GeneRIF:12508778 GeneRIF:16200580 GeneRIF:15188357 GeneRIF:12242722 GeneRIF:12826377 GeneRIF:12846052 GeneRIF:15167967 GeneRIF:14687710 GeneRIF:12808103 GeneRIF:12571842 GeneRIF:12140750 MSH:D001172 GeneRIF:15457473 GeneRIF:14630402 GeneRIF:15751070 GeneRIF:12039073 DOID:7148 GeneRIF:15208781 GeneRIF:15535837 GeneRIF:15290745 GeneRIF:14994383 GeneRIF:12651614 NCIt:C2884 GeneRIF:15877293 GeneRIF:12632415 GeneRIF:14532992 GeneRIF:15759013 GeneRIF:12413610 GeneRIF:14734742 GeneRIF:15638044 GeneRIF:12115181 GeneRIF:12905469 GeneRIF:11466388 GeneRIF:12784383 GeneRIF:11708406 GeneRIF:14749527 GeneRIF:12913925 GeneRIF:14558087 GeneRIF:11916172 GeneRIF:12705898 GeneRIF:16014623 GeneRIF:12401808 GeneRIF:15967793 GeneRIF:15184985 GeneRIF:12610796 GeneRIF:14976209 Rheumatoid arthritis NOS (disorder)[accessedResource: DOID:7148][accessDate: 2009-11-30] GeneRIF:11949889 GeneRIF:12454286 GeneRIF:15022344 GeneRIF:15457447 GeneRIF:12847274 GeneRIF:16175503 GeneRIF:16014635 GeneRIF:15875058 SNOMEDCT:287010008 GeneRIF:12553721 GeneRIF:11838837 Rheumatoid arthritis is a rheumatologic disorder described as an autoimmune disease that is usually a chronic disease and is characterized especially by pain, stiffness, inflammation, swelling, and sometimes destruction of joints.[accessedResource: DOID:7148][accessDate: 2009-11-30] GeneRIF:15083890 GeneRIF:15007027 GeneRIF:12209506 GeneRIF:12070776 GeneRIF:11733367 GeneRIF:14730602 GeneRIF:12114257 GeneRIF:15725578 GeneRIF:15290728 GeneRIF:11983200 GeneRIF:16052590 GeneRIF:15529384 GeneRIF:15971427 GeneRIF:15077295 GeneRIF:15517620 GeneRIF:15896202 GeneRIF:12635863 GeneRIF:15591039 Atrophic Arthritis[accessedResource: DOID:7148][accessDate: 2009-11-30] GeneRIF:15457444 GeneRIF:15188353 GeneRIF:14608356 GeneRIF:12208866 GeneRIF:15743888 GeneRIF:16098099 GeneRIF:12193736 GeneRIF:15254248 GeneRIF:12574395 GeneRIF:14994386 GeneRIF:11971877 GeneRIF:12739037 GeneRIF:16107870 James Malone GeneRIF:15022318 GeneRIF:12091338 GeneRIF:12374691 GeneRIF:14979058 GeneRIF:12119414 GeneRIF:15940757 GeneRIF:12097415 GeneRIF:12833157 GeneRIF:15022314 GeneRIF:15641039 GeneRIF:11857065 GeneRIF:15284119 GeneRIF:15634264 GeneRIF:15641066 GeneRIF:12643440 GeneRIF:12444174 GeneRIF:12782719 GeneRIF:12847677 GeneRIF:16151416 GeneRIF:12067756 GeneRIF:12847280 GeneRIF:16142859 GeneRIF:15850806 GeneRIF:15248212 GeneRIF:12528108 GeneRIF:15742432 GeneRIF:12702665 GeneRIF:12114309 GeneRIF:16127156 GeneRIF:12465141 GeneRIF:14617033 GeneRIF:12235453 GeneRIF:14984939 GeneRIF:16320327 GeneRIF:12089610 GeneRIF:15632153 GeneRIF:12707342 GeneRIF:12759455 GeneRIF:12847680 ICD9:714.0 GeneRIF:14647385 GeneRIF:11920278 GeneRIF:15259375 GeneRIF:15753214 GeneRIF:15723199 GeneRIF:15045639 GeneRIF:12697270 GeneRIF:15569925 GeneRIF:11906819 GeneRIF:15146412 GeneRIF:12047361 GeneRIF:15170914 GeneRIF:11861275 GeneRIF:14578453 GeneRIF:12054474 GeneRIF:12135431 GeneRIF:16287870 GeneRIF:11708408 GeneRIF:12175089 GeneRIF:11801682 GeneRIF:15381082 GeneRIF:14705216 GeneRIF:16038875 GeneRIF:15761492 GeneRIF:12183385 GeneRIF:16134725 GeneRIF:15389525 GeneRIF:12165497 GeneRIF:11922198 GeneRIF:15794198 GeneRIF:12913922 GeneRIF:15205567 GeneRIF:15163116 GeneRIF:15841095 GeneRIF:12070782 GeneRIF:12564836 GeneRIF:16200584 GeneRIF:14505215 GeneRIF:16288117 GeneRIF:12847683 GeneRIF:12508775 GeneRIF:12734884 GeneRIF:11966773 GeneRIF:12064825 GeneRIF:15146416 GeneRIF:12168808 GeneRIF:14726963 GeneRIF:15641073 GeneRIF:13130464 A chronic systemic disease, primarily of the joints, marked by inflammatory changes in the synovial membranes and articular structures, widespread fibrinoid degeneration of the collagen fibers in mesenchymal tissues, and by atrophy and rarefaction of bony structures. Etiology is unknown, but autoimmune mechanisms have been implicated. [Source: NCI Thesaurus C2884] GeneRIF:15879144 GeneRIF:15515123 GeneRIF:11881821 GeneRIF:12928381 GeneRIF:15859024 GeneRIF:15077297 GeneRIF:12846053 GeneRIF:12517948 Rheumatoid arthritis (disorder)[accessedResource: DOID:7148][accessDate: 2009-11-30] Arthritis or polyarthritis, rheumatic[accessedResource: DOID:7148][accessDate: 2009-11-30] GeneRIF:15022325 GeneRIF:12594835 GeneRIF:12793199 GeneRIF:12508786 GeneRIF:15470519 GeneRIF:14558083 GeneRIF:12233877 GeneRIF:12846065 GeneRIF:11725485 GeneRIF:15022315 GeneRIF:16200608 GeneRIF:15146411 GeneRIF:14991531 GeneRIF:15457442 GeneRIF:16329077 GeneRIF:15934099 GeneRIF:16002730 GeneRIF:12610797 GeneRIF:12718750 GeneRIF:15959531 GeneRIF:12095257 GeneRIF:14872281 GeneRIF:14749980 GeneRIF:15170913 GeneRIF:12233873 GeneRIF:16366416 The measure of movement of electrical charges in a conductor measured in milliamperes. Formerly class "current milliamperes" James Malone electrical current James Malone L3055 GeneRIF:12816863 James Malone GeneRIF:11771735 GeneRIF:15804423 GeneRIF:12576745 GeneRIF:15068237 GeneRIF:12957488 GeneRIF:15068254 BioportalImporter v.1.2 DOID:14250 GeneRIF:11824616 GeneRIF:12796830 GeneRIF:12400059 GeneRIF:15068242 GeneRIF:12393509 GeneRIF:11771751 GeneRIF:14678752 GeneRIF:15169762 GeneRIF:12628594 GeneRIF:11565556 GeneRIF:12650976 GeneRIF:12943237 Down's syndrome - trisomy 21[accessedResource: DOID:14250][accessDate: 2009-11-30] GeneRIF:15255950 GeneRIF:11856873 GeneRIF:16222229 ICD9:758.0 GeneRIF:12200143 GeneRIF:15184603 GeneRIF:14701734 GeneRIF:12032275 G Trisomy[accessedResource: DOID:14250][accessDate: 2009-11-30] GeneRIF:14738882 GeneRIF:15820773 GeneRIF:11331941 GeneRIF:15103709 GeneRIF:12172547 GeneRIF:15946822 GeneRIF:12586620 GeneRIF:11771736 GeneRIF:12931206 GeneRIF:11771755 GeneRIF:11879646 GeneRIF:16231093 GeneRIF:14636651 GeneRIF:11771746 A chromosome disorder associated either with an extra chromosome 21 or an effective trisomy for chromosome 21. Clinical manifestations include hypotonia, short stature, brachycephaly, upslanting palpebral fissures, epicanthus, Brushfield spots on the iris, protruding tongue, small ears, short, broad hands, fifth finger clinodactyly, Simian crease, and moderate to severe MENTAL RETARDATION. Cardiac and gastrointestinal malformations, a marked increase in the incidence of LEUKEMIA, and the early onset of ALZHEIMER DISEASE are also associated with this condition. Pathologic features include the development of NEUROFIBRILLARY TANGLES in neurons and the deposition of AMYLOID BETA-PROTEIN, similar to the pathology of ALZHEIMER DISEASE. (Menkes, Textbook of Child Neurology, 5th ed, p213)[accessedResource: MSH:D004314][accessDate: 2009-11-30] GeneRIF:15068244 GeneRIF:12923861 GeneRIF:15068241 GeneRIF:12895444 GeneRIF:12499044 GeneRIF:15661359 SNOMEDCT:41040004 GeneRIF:16274669 GeneRIF:15068251 GeneRIF:15694837 Complete trisomy 21 syndrome (disorder)[accessedResource: DOID:14250][accessDate: 2009-11-30] A chromosomal dysgenesis syndrome resulting from a triplication or translocation of chromosome 21. Down syndrome occurs in approximately 1:700 live births. Abnormalities are variable from individual to individual and may include mental retardation, retarded growth, flat hypoplastic face with short nose, prominent epicanthic skin folds, small low-set ears with prominent antihelix, fissured and thickened tongue, laxness of joint ligaments, pelvic dysplasia, broad hands and feet, stubby fingers, transverse palmar crease, lenticular opacities and heart disease. Patients with Down syndrome have an estimated 10 to 30-fold increased risk for leukemia; most have symptoms of Alzheimer's disease by age 40. Also known as trisomy 21 syndrome. --2004[accessedResource: NCIt:C2993][accessDate: 2009-11-30] Tomasz Adamusiak Down's syndrome NOS[accessedResource: DOID:14250][accessDate: 2009-11-30] Down's syndrome NOS (disorder)[accessedResource: DOID:14250][accessDate: 2009-11-30] GeneRIF:12070657 NIFSTD:nlx_dys_20090502 GeneRIF:11920898 GeneRIF:12109594 GeneRIF:11771757 GeneRIF:15068245 GeneRIF:11771738 GeneRIF:14656875 GeneRIF:12080391 GeneRIF:12459318 GeneRIF:11771745 GeneRIF:11771762 GeneRIF:15068243 GeneRIF:11771750 MSH:D004314 GeneRIF:12771203 GeneRIF:11771764 GeneRIF:11810642 GeneRIF:12767918 trisomy 21 syndrome[accessedResource: DOID:14250][accessDate: 2009-11-30] GeneRIF:12359327 NCIt:C2993 GeneRIF:14615042 GeneRIF:14512321 GeneRIF:11771749 GeneRIF:12529699 Downs syndrome[accessedResource: DOID:14250][accessDate: 2009-11-30] GeneRIF:12145461 GeneRIF:12515899 GeneRIF:15082224 SNOMEDCT:254263008 GeneRIF:15358155 GeneRIF:11771758 GeneRIF:12469345 GeneRIF:15068239 Down syndrome James Malone plant growth retardant http://www.ebi.ac.uk/efo/EFO_0001833 CHEBI:35219 AN3CA James Malone Ele Holloway obsolete_infiltrating lobular carcinoma Made obsolete: considered as synonym to invasive lobular carcinoma true ovalbumin NCIt:C54187 James Malone BioportalImporter v.1.2 floor of mouth Floor of the Mouth[accessedResource: NCIt:C54187][accessDate: 2009-11-30] DOID:4468 SNOMEDCT:189633003 GeneRIF:14633622 GeneRIF:15102668 GeneRIF:14559803 Clear cell adenocarcinoma (morphologic abnormality)[accessedResource: DOID:4468][accessDate: 2009-11-30] GeneRIF:12086860 A malignant neoplasm composed of glandular epithelial clear cells. Various architectural patterns may be seen, including papillary, tubulocystic, and solid. [Source: NCI Thesaurus C3766] clear cell adenocarcinoma GeneRIF:12937142 BioportalImporter v.1.2 GeneRIF:12970394 GeneRIF:15489654 Clear cell adenocarcinoma NOS (morphologic abnormality)[accessedResource: DOID:4468][accessDate: 2009-11-30] Mesonephroid Clear Cell Carcinoma[accessedResource: NCIt:C3766][accessDate: 2009-11-30] GeneRIF:15297970 An adenocarcinoma characterized by the presence of varying combinations of clear and hobnail-shaped tumor cells. There are three predominant patterns described as tubulocystic, solid, and papillary. These tumors, usually located in the female reproductive organs, have been seen more frequently in young women since 1970 as a result of the association with intrauterine exposure to diethylstilbestrol. (From Holland et al., Cancer Medicine, 3d ed)[accessedResource: MSH:D018262][accessDate: 2009-11-30] NCIt:C3766 James Malone MSH:D018262 GeneRIF:14729622 Mesonephroid Clear Cell Adenocarcinoma[accessedResource: NCIt:C3766][accessDate: 2009-11-30] GeneRIF:14722919 SNOMEDCT:30546008 GeneRIF:15884099 clear cell carcinoma[accessedResource: NCIt:C3766][accessDate: 2009-11-30] GM12812 James Malone GeneRIF:11973618 A heterogenous group of inherited muscular dystrophy without the involvement of nervous system. The disease is characterized by MUSCULAR ATROPHY; MUSCLE WEAKNESS; CONTRACTURE of the elbows; ACHILLES TENDON; and posterior cervical muscles; with or without cardiac features. There are several INHERITANCE PATTERNS including X-linked (X CHROMOSOME), autosomal dominant, and autosomal recessive gene mutations.[accessedResource: MSH:D020389][accessDate: 2009-11-30] SNOMEDCT:129620000 James Malone GeneRIF:12467752 BioportalImporter v.1.2 Emery-Dreifuss muscular dystrophy (disorder)[accessedResource: DOID:11726][accessDate: 2009-11-30] Emery-Dreifuss muscular dystrophy SNOMEDCT:111508004 GeneRIF:12755701 MSH:D020389 GeneRIF:15009215 GeneRIF:12684533 DOID:11726 Clear cell carcinoma of kidney[accessedResource: DOID:4467][accessDate: 2009-11-30] NCIt:C4033 Conventional (Clear cell) Renal cell Carcinoma[accessedResource: DOID:4467][accessDate: 2009-11-30] true Clear Cell Adenocarcinoma of the Kidney[accessedResource: NCIt:C4033][accessDate: 2009-11-30] James Malone Clear Cell Renal Cell Carcinoma[accessedResource: NCIt:C4033][accessDate: 2009-11-30] BioportalImporter v.1.2 GeneRIF:12576453 duplicate of EFO_0000349 (clear cell renal carcinoma) Conventional Renal cell Carcinoma[accessedResource: DOID:4467][accessDate: 2009-11-30] Clear Cell Carcinoma of the Kidney[accessedResource: NCIt:C4033][accessDate: 2009-11-30] Renal Clear Cell Adenocarcinoma[accessedResource: NCIt:C4033][accessDate: 2009-11-30] Conventional (Clear Cell) Renal Cell Adenocarcinoma[accessedResource: NCIt:C4033][accessDate: 2009-11-30] GeneRIF:14550470 SNOMEDCT:254915003 Clear cell carcinoma of kidney (disorder)[accessedResource: DOID:4467][accessDate: 2009-11-30] obsolete_renal clear cell carcinoma A malignant epithelial neoplasm of the kidney characterized by the presence of lipid-containing clear cells within a vascular network. The tumor may metastasize to unusual sites and late metastasis is common.[accessedResource: NCIt:C4033][accessDate: 2009-11-30] Hypernephroma[accessedResource: NCIt:C4033][accessDate: 2009-11-30] Clear cell carcinoma of kidney is a renal cell carcinoma described as the most common type of renal cell carcinoma. The cancerous cells appear very pale or clear when examined under microscope. This cancer can be effectively treated with surgery if the tumor is confined to the kidney.[accessedResource: DOID:4467][accessDate: 2009-11-30] Clear Cell Adenocarcinoma, Kidney[accessedResource: NCIt:C4033][accessDate: 2009-11-30] 1.8 Clear Cell Adenocarcinoma of Kidney[accessedResource: NCIt:C4033][accessDate: 2009-11-30] MSH:D002292 DOID:4467 A heterogeneous group of sporadic or hereditary carcinoma derived from cells of the KIDNEYS. There are several subtypes including the clear cells, the papillary, the chromophobe, the collecting duct, the spindle cells (sarcomatoid), or mixed cell-type carcinoma.[accessedResource: MSH:D002292][accessDate: 2009-11-30] Kidney Clear Cell Carcinoma[accessedResource: NCIt:C4033][accessDate: 2009-11-30] GeneRIF:15709172 Grawitz Tumor[accessedResource: NCIt:C4033][accessDate: 2009-11-30] GeneRIF:15062033 CL:0000988 BioportalImporter v.1.2 Tomasz Adamusiak A blood cell.[accessedResource: BTO:0000574][accessDate: 2009-11-30] hematopoietic cell BTO:0000574 haematopoietic cell[accessedResource: CL:0000988][accessDate: 2009-11-30] hemopoietic cell[accessedResource: CL:0000988][accessDate: 2009-11-30] A cell of a hematopoietic lineage.[accessedResource: CL:0000988][accessDate: 2009-11-30] haemopoietic cell[accessedResource: CL:0000988][accessDate: 2009-11-30] James Malone Whipple's disease Intestinal lipodystrophy[accessedResource: DOID:8476][accessDate: 2009-11-30] ICD9:040.2 whipple disease[accessedResource: DOID:8476][accessDate: 2009-11-30] DOID:8476 BioportalImporter v.1.2 Whipple's disease (disorder)[accessedResource: DOID:8476][accessDate: 2009-11-30] A chronic systemic infection by a gram-positive bacterium, Tropheryma whippelii, mainly affecting the SMALL INTESTINE but also the JOINTS; CARDIOVASCULAR SYSTEM; and the CENTRAL NERVOUS SYSTEM. The disease is characterized by fat deposits in the INTESTINAL MUCOSA and LYMPH NODES, malabsorption, DIARRHEA with fatty stools, MALNUTRITION, and ARTHRITIS.[accessedResource: MSH:D008061][accessDate: 2009-11-30] MSH:D008061 SNOMEDCT:41545003 animal fluid James Malone MAT:0000020 An organofluorine compound that has formula C4H3FN2O2.[accessedResource: CHEBI:46345][accessDate: 2009-11-30] 5-fluorouracil http://www.ebi.ac.uk/efo/EFO_0001474 BioportalImporter v.1.2 Ele Holloway CHEBI:46345 James Malone http://www.ebi.ac.uk/efo/EFO_0002488 5-fluoropyrimidine-2,4(1H,3H)-dione[accessedResource: CHEBI:46345][accessDate: 2009-11-30] cardiac muscle cell[accessedResource: CL:0000746][accessDate: 2009-11-30] cardiomyocyte[accessedResource: CL:0000746][accessDate: 2009-11-30] NIFSTD:sao658938043 BioportalImporter v.1.2 Tomasz Adamusiak CL:0000746 A heart muscle cell.[accessedResource: BTO:0001539][accessDate: 2009-11-30] James Malone cardiac myocyte BTO:0001539 An assay with input RNA RNA assay James Malone NCI Metathesaurus: C0038404 Enterococcus faecalis infection James Malone cleavage 8-cell James Malone ZFS:0000004 James Malone adductor mandibulae complex ZFA:0000311 duplicate of T-cell lymphoblastic lymphoma EFO_0000209 obsolete_T-cell lymphoblastic lymphoma 1.8 true James Malone estradiol BioportalImporter v.1.2 CS57631 James Malone http://www.arabidopsis.org/servlets/TairObject?id=1005158655&type=germplasm CS57631 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158655&type=germplasm CS57790 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158814&type=germplasm http://www.arabidopsis.org/servlets/TairObject?id=1005158814&type=germplasm CS57790 James Malone site James Malone An independent continuant [snap:IndependentContinuant] consisting of a characteristic spatial shape in relation to some arrangement of other continuant [snap:Continuant] entities and of the medium which is enclosed in whole or in part by this characteristic spatial shape. Site [snap:Site] entities are entities that can be occupied by other continuant [snap:Continuant] entities. A site is an entity which consists of a characteristic spatial shape in relation to some arrangement of other material entities. http://www.ebi.ac.uk/efo/EFO_0001437 ITM-E6E7 James Malone Ele Holloway CL:0000449 James Malone BioportalImporter v.1.2 brown fat cell A cell from the thermogenic form of adipose tissue found in newborns of many species, including humans, and in hibernating mammals. Brown fat is capable of rapid liberation of energy and seems to be important in the maintenance of body temperature immediately after birth and upon waking from hibernation.[accessedResource: CL:0000449][accessDate: 2009-11-30] A S. pombe mating type determined by the mat1-Mc and mat1-Mi on the mat1 locus.[accessedResource: PATO:0001345][accessDate: 2009-11-30] PATO:0001345 MO_407 h minus[accessedResource: PATO:0001345][accessDate: 2009-11-30] James Malone BioportalImporter v.1.2 mating type h minus NCIH1793 James Malone Ele Holloway ZFA:0000208 FMAID:7202 BioportalImporter v.1.2 gall bladder EHDAA:8062 MFO:0003020 TAO:0000208 Organ with organ cavity which is continuous proximally with the cystic duct and distally terminates in the fundus of the gallbladder. Examples: There is only one gallbladder.[accessedResource: FMAID:7202][accessDate: 2009-11-30] SAEL:44 MAT:0000072 MA:000356 BTO:0000493 EV:0100090 James Malone EMAPA:17202 Gallbladder[accessedResource: FMAID:7202][accessDate: 2009-11-30] XAO:0000135 A small, pear-shaped muscular sac, located under the right lobe of the liver, in which bile secreted by the liver is stored until needed by the body for digestion.[accessedResource: BTO:0000493][accessDate: 2009-11-30] limb skeleton The hard form of connective tissue that constitutes the majority of the skeleton of most vertebrates; it consists of an organic component (the cells and matrix) and an inorganic, or mineral, component; the matrix contains a framework of collagenous fibers and is impregnated with the mineral component, chiefly calcium phosphate (85 per cent) and calcium carbonate (10 per cent), which imparts the quality of rigidity to bone.[accessedResource: BTO:0000140][accessDate: 2009-11-30] MAT:0000151 James Malone BioportalImporter v.1.2 limb bone MA:0000688 BTO:0000140 histamine antagonist http://www.ebi.ac.uk/efo/EFO_0001865 James Malone BioportalImporter v.1.2 Histamine antagonists are the drugs that bind to but do not activate histamine receptors, thereby blocking the actions of histamine or histamine agonists.[accessedResource: CHEBI:37956][accessDate: 2009-11-30] CHEBI:37956 obsolete_clinical factor true James Malone Redundant A clincal factors is a biomaterial factor that concerns the observation, treatment or measurement of disease within subjects. A large lobulated gland of vertebrates that secretes digestive enzymes and the hormones insulin and glucagon.[accessedResource: BTO:0000988][accessDate: 2009-11-30] EMAPA:18816 pancreas MA:0001582 Lobular organ the parenchyma of which consists of glandular acini which communicate via a duct system with the duodenum. Examples: There is only one pancreas.[accessedResource: FMAID:7198][accessDate: 2009-11-30] EHDAA:6893 BTO:0000988 EV:0100092 MA:0002415 SAEL:80 James Malone TAO:0000140 BioportalImporter v.1.2 MAT:0000075 ZFA:0000140 XAO:0000136 FMAID:7198 ZFA:0000279 XAO:0000057 TAO:0000279 presomitic mesoderm James Malone Tomasz Adamusiak Jie Zheng stomach endoderm 4T1 James Malone Ele Holloway GM11839 James Malone hardware instrument An instrument is a device which provides a mechanical or electronic function. [accessedResource: http://purl.obolibrary.org/obo/OBI_0400003][accessDate: 2009-08-10] OBI_0400003 James Malone Jie Zheng Tomasz Adamusiak MO_113 MO_134 CHEBI:35666 thiopurines mercaptopurines http://www.ebi.ac.uk/efo/EFO_0001568 http://www.ebi.ac.uk/efo/EFO_0001624 CS57587 http://www.arabidopsis.org/servlets/TairObject?id=1005158611&type=germplasm James Malone CS57587 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158611&type=germplasm pM[accessedResource: UO:0000066][accessDate: 2009-11-30] picomolar James Malone MO_628 A unit of molarity which is equal to 10^[-12] M.[accessedResource: UO:0000066][accessDate: 2009-11-30] Tomasz Adamusiak http://www.ebi.ac.uk/efo/EFO_0001813 BioportalImporter v.1.2 Jie Zheng http://www.ebi.ac.uk/efo/EFO_0001582 non-steroidal anti-inflammatory drug An anti-inflammatory drug that is not a steroid. In addition to anti-inflammatory actions, non-steroidal anti-inflammatory drugs have analgesic, antipyretic, and platelet-inhibitory actions. They act by blocking the synthesis of prostaglandins by inhibiting cyclooxygenase, which converts arachidonic acid to cyclic endoperoxides, precursors of prostaglandins.[accessedResource: CHEBI:35475][accessDate: 2009-11-30] BioportalImporter v.1.2 GeneRIF:15047814 EBV Infection[accessedResource: NCIt:C38759][accessDate: 2009-11-30] GeneRIF:15170639 Epstein-Barr virus infection SNOMEDCT:402121009 NCIt:C38759 GeneRIF:15650182 GeneRIF:12050395 GeneRIF:12163590 Epstein-Barr virus infection (disorder)[accessedResource: DOID:2938][accessDate: 2009-11-30] GeneRIF:15324931 GeneRIF:14607922 GeneRIF:11979459 BioportalImporter v.1.2 GeneRIF:15808506 James Malone GeneRIF:15368517 GeneRIF:15929169 GeneRIF:14747531 GeneRIF:12707047 Infection with human herpesvirus 4 (HERPESVIRUS 4, HUMAN); which may facilitate the development of various lymphoproliferative disorders. These include BURKITT LYMPHOMA (African type), INFECTIOUS MONONUCLEOSIS, and oral hairy leukoplakia (LEUKOPLAKIA, HAIRY).[accessedResource: MSH:D020031][accessDate: 2009-11-30] GeneRIF:14747532 MSH:D020031 DOID:2938 GeneRIF:15356108 GeneRIF:11813981 ZFS:0000034 hatching pec-fin James Malone CS57876 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158900&type=germplasm CS57876 http://www.arabidopsis.org/servlets/TairObject?id=1005158900&type=germplasm James Malone FMAID:14547 MAT:0000313 The portion of the colon between the left colic flexure and the sigmoid colon at the pelvic brim; the portion of the descending colon lying in the left iliac fossa is sometimes called the iliac colon.[accessedResource: BTO:0000641][accessDate: 2009-11-30] James Malone BTO:0000641 descending colon BioportalImporter v.1.2 James Malone CS57776 http://www.arabidopsis.org/servlets/TairObject?id=1005158800&type=germplasm CS57776 is an Arabidopsis thaliana strain as described in TAIR http://www.arabidopsis.org/servlets/TairObject?id=1005158800&type=germplasm immune system disease ICD9:279.4 James Malone Immunodeficiency and Immunosuppression Disorders[accessedResource: NCIt:C27351][accessDate: 2009-11-30] Immune System and Related Disorders[accessedResource: NCIt:C27351][accessDate: 2009-11-30] SNOMEDCT:191035005 BioportalImporter v.1.2 DOID:2914 SNOMEDCT:191019003 ICD9:279.1 SNOMEDCT:191017001 ICD9:279.9 ICD9:279 ICD9:279.19 NCIt:C27351 ICD9:279.10 A group of non-neoplastic and neoplastic disorders resulting from the deregulation and/or deficiency of immune system functions. It includes autoimmune disorders (e.g., lupus erythematosus, dermatomyositis, rheumatoid arthritis), congenital and acquired immunodeficiency syndromes including the acquired immune deficiency syndrome (AIDS), and neoplasms (e.g., lymphomas and malignancies secondary to transplantation.) [Source: NCI Thesaurus C27351] Disorder of the immune mechanism NOS ICD9:279.8 James Malone plant component MAT:0000003 MO_779 A mix of specimens from multiple individuals. pool Tomasz Adamusiak Jie Zheng James Malone James Malone Ele Holloway PancTUI PancTuI PancTu-I period of infection James Malone James Malone Ele Holloway SUDHL5 GeneRIF:12881718 GeneRIF:15948146 1.5 Glial Neoplasm[accessedResource: NCIt:C3059][accessDate: 2009-11-30] GeneRIF:15015772 GeneRIF:12231538 GeneRIF:15973152 true GeneRIF:15273738 GeneRIF:15201971 GeneRIF:15469737 GeneRIF:12810672 GeneRIF:12198774 GeneRIF:12907597 GeneRIF:15088070 GeneRIF:11809417 A benign or malignant brain and spinal cord tumor that arises from glial cells (astrocytes, oligodendrocytes, ependymal cells). Tumors that arise from astrocytes are called astrocytic tumors or astrocytomas. Tumors that arise from oligodendrocytes are called oligodendroglial tumors. Tumors that arise from ependymal cells are called ependymomas.[accessedResource: NCIt:C3059][accessDate: 2009-11-30] glial tumors[accessedResource: NCIt:C3059][accessDate: 2009-11-30] Benign and malignant central nervous system neoplasms derived from glial cells (i.e., astrocytes, oligodendrocytes, and ependymocytes). Astrocytes may give rise to astrocytomas (ASTROCYTOMA) or glioblastoma multiforme (see GLIOBLASTOMA). Oligodendrocytes give rise to oligodendrogliomas (OLIGODENDROGLIOMA) and ependymocytes may undergo transformation to become EPENDYMOMA; CHOROID PLEXUS NEOPLASMS; or colloid cysts of the third ventricle. (From Escourolle et al., Manual of Basic Neuropathology, 2nd ed, p21)[accessedResource: MSH:D005910][accessDate: 2009-11-30] GeneRIF:12545160 GeneRIF:15332324 GeneRIF:15774464 Tumor of Neuroglia[accessedResource: NCIt:C3059][accessDate: 2009-11-30] SNOMEDCT:189926000 GeneRIF:12850541 GeneRIF:14530312 GeneRIF:16389900 GeneRIF:16033775 GeneRIF:11716067 GeneRIF:12388547 GeneRIF:15160992 GeneRIF:16215635 GeneRIF:15509526 Glioma[accessedResource: DOID:2627][accessDate: 2009-11-30] GeneRIF:15657358 GeneRIF:11949822 GeneRIF:15958622 GeneRIF:15072448 Gliomas (morphologic abnormality)[accessedResource: DOID:2627][accessDate: 2009-11-30] GeneRIF:12130632 GeneRIF:15056287 Neuroglial Neoplasm[accessedResource: NCIt:C3059][accessDate: 2009-11-30] GeneRIF:15580296 GeneRIF:11705870 GeneRIF:12843260 GeneRIF:11859970 GeneRIF:12684632 GeneRIF:14997014 GeneRIF:11930164 GeneRIF:12735302 GeneRIF:12962281 GeneRIF:16098466 DOID:2627 GeneRIF:12496285 GeneRIF:12764090 Neuroglial tumor[accessedResource: DOID:2627][accessDate: 2009-11-30] GeneRIF:15557754 GeneRIF:14597411 GeneRIF:12576462 Neoplasm of Neuroglia[accessedResource: NCIt:C3059][accessDate: 2009-11-30] GeneRIF:15737330 GeneRIF:12509854 GeneRIF:15383564 GeneRIF:15254085 MSH:D005910 GeneRIF:16084492 GeneRIF:12125964 GeneRIF:16049340 GeneRIF:15882793 GeneRIF:11836615 GeneRIF:12821932 GeneRIF:15047712 SNOMEDCT:189908003